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1

In vivo evidence that Agxt2 can regulate plasma levels of dimethylarginines in mice.  

PubMed

Elevated plasma concentrations of the asymmetric (ADMA) and symmetric (SDMA) dimethylarginine have repeatedly been linked to adverse cardiovascular clinical outcomes. Both dimethylarginines can be degraded by alanine-glyoxylate aminotransferase 2 (Agxt2), which is also the key enzyme responsible for the degradation of endogenously formed ?-aminoisobutyrate (BAIB). In the present study we wanted to investigate the effect of BAIB on Agxt2 expression and Agxt2-mediated metabolism of dimethylarginines. We infused BAIB or saline intraperitoneally for 7days in C57/BL6 mice via minipumps. Expression of Agxt2 was determined in liver and kidney. The concentrations of BAIB, dimethylarginines and the Agxt2-specific ADMA metabolite ?-keto-?-(N(G),N(G)-dimethylguanidino)valeric acid (DMGV) was determined by LC-MS/MS in plasma and urine. As compared to controls systemic administration of BAIB increased plasma and urine BAIB levels by a factor of 26.5 (p<0.001) and 25.8 (p<0.01), respectively. BAIB infusion resulted in an increase of the plasma ADMA and SDMA concentrations of 27% and 31%, respectively, (both p<0.05) and a 24% decrease of plasma DMGV levels (p<0.05), while expression of Agxt2 was not different. Our data demonstrate that BAIB can inhibit Agxt2-mediated metabolism of dimethylarginines and show for the first time that endogenous Agxt2 is involved in the regulation of systemic ADMA, SDMA and DMGV levels. The effect of BAIB excess on endogenous dimethylarginine levels may have direct clinical implications for humans with the relatively common genetic trait of hyper-?-aminoisobutyric aciduria. PMID:23154179

Kittel, Anja; Maas, Renke; König, Jörg; Mieth, Maren; Weiss, Norbert; Jarzebska, Natalia; Hohenstein, Bernd; Martens-Lobenhoffer, Jens; Bode-Böger, Stefanie M; Rodionov, Roman N

2013-01-01

2

Alanine-glyoxylate aminotransferase 2 (AGXT2) Polymorphisms Have Considerable Impact on Methylarginine and ?-aminoisobutyrate Metabolism in Healthy Volunteers  

PubMed Central

Elevated plasma concentrations of asymmetric (ADMA) and symmetric (SDMA) dimethylarginine have repeatedly been linked to adverse clinical outcomes. Both methylarginines are substrates of alanine-glyoxylate aminotransferase 2 (AGXT2). It was the aim of the present study to simultaneously investigate the functional relevance and relative contributions of common AGXT2 single nucleotide polymorphisms (SNPs) to plasma and urinary concentrations of methylarginines as well as ?-aminoisobutyrate (BAIB), a prototypic substrate of AGXT2. In a cohort of 400 healthy volunteers ADMA, SDMA and BAIB concentrations were determined in plasma and urine using HPLC-MS/MS and were related to the coding AGXT2 SNPs rs37369 (p.Val140Ile) and rs16899974 (p.Val498Leu). Volunteers heterozygous or homozygous for the AGXT2 SNP rs37369 had higher SDMA plasma concentrations by 5% and 20% (p?=?0.002) as well as higher BAIB concentrations by 54% and 146%, respectively, in plasma and 237% and 1661%, respectively, in urine (both p<0.001). ADMA concentrations were not affected by both SNPs. A haplotype analysis revealed that the second investigated AGXT2 SNP rs16899974, which was not significantly linked to the other AGXT2 SNP, further aggravates the effect of rs37369 with respect to BAIB concentrations in plasma and urine. To investigate the impact of the amino acid exchange p.Val140Ile, we established human embryonic kidney cell lines stably overexpressing wild-type or mutant (p.Val140Ile) AGXT2 protein and assessed enzyme activity using BAIB and stable-isotope labeled [2H6]-SDMA as substrate. In vitro, the amino acid exchange of the mutant protein resulted in a significantly lower enzyme activity compared to wild-type AGXT2 (p<0.05). In silico modeling of the SNPs indicated reduced enzyme stability and substrate binding. In conclusion, SNPs of AGXT2 affect plasma as well as urinary BAIB and SDMA concentrations linking methylarginine metabolism to the common genetic trait of hyper-?-aminoisobutyric aciduria. PMID:24586340

König, Jörg; Mieth, Maren; Sticht, Heinrich; Zolk, Oliver; Kralj, Ana; Heinrich, Markus R.; Fromm, Martin F.; Maas, Renke

2014-01-01

3

Alanine-glyoxylate aminotransferase 2 (AGXT2) polymorphisms have considerable impact on methylarginine and ?-aminoisobutyrate metabolism in healthy volunteers.  

PubMed

Elevated plasma concentrations of asymmetric (ADMA) and symmetric (SDMA) dimethylarginine have repeatedly been linked to adverse clinical outcomes. Both methylarginines are substrates of alanine-glyoxylate aminotransferase 2 (AGXT2). It was the aim of the present study to simultaneously investigate the functional relevance and relative contributions of common AGXT2 single nucleotide polymorphisms (SNPs) to plasma and urinary concentrations of methylarginines as well as ?-aminoisobutyrate (BAIB), a prototypic substrate of AGXT2. In a cohort of 400 healthy volunteers ADMA, SDMA and BAIB concentrations were determined in plasma and urine using HPLC-MS/MS and were related to the coding AGXT2 SNPs rs37369 (p.Val140Ile) and rs16899974 (p.Val498Leu). Volunteers heterozygous or homozygous for the AGXT2 SNP rs37369 had higher SDMA plasma concentrations by 5% and 20% (p?=?0.002) as well as higher BAIB concentrations by 54% and 146%, respectively, in plasma and 237% and 1661%, respectively, in urine (both p<0.001). ADMA concentrations were not affected by both SNPs. A haplotype analysis revealed that the second investigated AGXT2 SNP rs16899974, which was not significantly linked to the other AGXT2 SNP, further aggravates the effect of rs37369 with respect to BAIB concentrations in plasma and urine. To investigate the impact of the amino acid exchange p.Val140Ile, we established human embryonic kidney cell lines stably overexpressing wild-type or mutant (p.Val140Ile) AGXT2 protein and assessed enzyme activity using BAIB and stable-isotope labeled [²H?]-SDMA as substrate. In vitro, the amino acid exchange of the mutant protein resulted in a significantly lower enzyme activity compared to wild-type AGXT2 (p<0.05). In silico modeling of the SNPs indicated reduced enzyme stability and substrate binding. In conclusion, SNPs of AGXT2 affect plasma as well as urinary BAIB and SDMA concentrations linking methylarginine metabolism to the common genetic trait of hyper-?-aminoisobutyric aciduria. PMID:24586340

Kittel, Anja; Müller, Fabian; König, Jörg; Mieth, Maren; Sticht, Heinrich; Zolk, Oliver; Kralj, Ana; Heinrich, Markus R; Fromm, Martin F; Maas, Renke

2014-01-01

4

Mutational analysis of AGXT in two Chinese families with primary hyperoxaluria type 1  

PubMed Central

Background Primary hyperoxaluria type 1 is a rare autosomal recessive disease of glyoxylate metabolism caused by a defect in the liver-specific peroxisomal enzyme alanine:glyoxylate aminotransferase (AGT) that leads to hyperoxaluria, recurrent urolithiasis, and nephrocalcinosis. Methods Two unrelated patients with recurrent urolithiasis, along with members of their families, exhibited mutations in the AGXT gene by PCR direct sequencing. Results Two heterozygous mutations that predict truncated proteins, p.S81X and p.S275delinsRAfs, were identified in one patient. The p.S81X mutation is novel. Two heterozygous missense mutations, p.M1T and p.I202N, were detected in another patient but were not identified in her sibling. These four mutations were confirmed to be of paternal and maternal origin. Conclusions These are the first cases of primary hyperoxaluria type 1 to be diagnosed by clinical manifestations and AGXT gene mutations in mainland China. The novel p.S81X and p.I202N mutations detected in our study extend the spectrum of known AGXT gene mutations. PMID:24934730

2014-01-01

5

Primary hyperoxaluria type 1 and brachydactyly mental retardation syndrome caused by a novel mutation in AGXT and a terminal deletion of chromosome 2.  

PubMed

Primary hyperoxaluria type 1 (PH1) is an autosomal recessive disorder caused by mutations in the alanine:glyoxylate aminotransferase (AGXT) gene, located on chromosome 2q37. Mutant AGXT leads to excess production and excretion of oxalate, resulting in accumulation of calcium oxalate in the kidney, and progressive loss of renal function. Brachydactyly mental retardation syndrome (BDMR) is an autosomal dominant disorder, caused by haploinsufficiency of histone deacetylase 4 (HDAC4), also on chromosome 2q37. It is characterized by skeletal abnormalities and developmental delay. Here, we report on a girl who had phenotypes of both PH1 and BDMR. PCR-sequencing of the coding regions of AGXT showed a novel missense mutation, c.32C>G (p.Pro11Arg) inherited from her mother. Functional analyses demonstrated that it reduced the enzymatic activity to 31% of the wild-type and redirected some percentage of the enzyme away from the peroxisome. Microsatellite and array-CGH analyses indicated that the proband had a paternal de novo telomeric deletion of chromosome 2q, which included HDAC4. To our knowledge, this is the first report of PH1 and BDMR, with a novel AGXT mutation and a de novo telomeric deletion of chromosome 2q. PMID:22821680

Tammachote, Rachaneekorn; Kingsuwannapong, Nelawat; Tongkobpetch, Siraprapa; Srichomthong, Chalurmpon; Yeetong, Patra; Kingwatanakul, Pornchai; Monico, Carla G; Suphapeetiporn, Kanya; Shotelersuk, Vorasuk

2012-09-01

6

Partial deletion of the AGXT gene (EX1_EX7del): A new genotype in hyperoxaluria type 1.  

PubMed

Primary hyperoxaluria type 1 (PH1) is a rare autosomal (2q37.3) recessive metabolic disease caused by a deficiency of the hepatic peroxisomal enzyme alanine:glyoxylate amino transferase. Molecular heterogeneity is important in PH1 as most of the patients (if the parents are unrelated) are compound heterozygotes for rare mutations. We describe the first large deletion in the AGXT gene, removing exons 1 to 7 (EX1_EX7del) that was responsible for one case of severe PH1. This 10 kb deletion was identified by Southern blotting of genomic DNA digested by Xba I and hybridized with different exonic probes. Both parents (from Turkey) are first cousin and carry the deletion. It is of note that the presently reported patient did not exhibit any AGT catalytic activity and even so, he progressed towards end-stage renal disease only at 19 years old. PMID:10737993

Nogueira, P K; Vuong, T S; Bouton, O; Maillard, A; Marchand, M; Rolland, M O; Cochat, P; Bozon, D

2000-04-01

7

GenBank.  

PubMed

GenBank is a comprehensive database that contains publicly available nucleotide sequences for more than 300,000 organisms named at the genus level or lower, obtained primarily through submissions from individual laboratories and batch submissions from large-scale sequencing projects, including whole genome shotgun (WGS) and environmental sampling projects. Most submissions are made using the web-based BankIt or standalone Sequin programs, and accession numbers are assigned by GenBank staff upon receipt. Daily data exchange with the European Molecular Biology Laboratory Nucleotide Sequence Database in Europe and the DNA Data Bank of Japan ensures worldwide coverage. GenBank is accessible through the NCBI Entrez retrieval system, which integrates data from the major DNA and protein sequence databases along with taxonomy, genome, mapping, protein structure and domain information, and the biomedical journal literature via PubMed. BLAST provides sequence similarity searches of GenBank and other sequence databases. Complete bi-monthly releases and daily updates of the GenBank database are available by FTP. To access GenBank and its related retrieval and analysis services, begin at the NCBI homepage: www.ncbi.nlm.nih.gov. PMID:19910366

Benson, Dennis A; Karsch-Mizrachi, Ilene; Lipman, David J; Ostell, James; Sayers, Eric W

2010-01-01

8

GenBank.  

PubMed

GenBank® is a comprehensive database that contains publicly available nucleotide sequences for more than 250,00 formally described species. These sequences are obtained primarily through submissions from individual laboratories and batch submissions from large-scale sequencing projects, including whole-genome shotgun (WGS) and environmental sampling projects. Most submissions are made using the web-based BankIt or standalone Sequin programs, and accession numbers are assigned by GenBank staff upon receipt. Daily data exchange with the European Nucleotide Archive (ENA) and the DNA Data Bank of Japan (DDBJ) ensures worldwide coverage. GenBank is accessible through the NCBI Entrez retrieval system, which integrates data from the major DNA and protein sequence databases along with taxonomy, genome, mapping, protein structure and domain information, and the biomedical journal literature via PubMed. BLAST provides sequence similarity searches of GenBank and other sequence databases. Complete bimonthly releases and daily updates of the GenBank database are available by FTP. To access GenBank and its related retrieval and analysis services, begin at the NCBI home page: www.ncbi.nlm.nih.gov. PMID:22144687

Benson, Dennis A; Karsch-Mizrachi, Ilene; Clark, Karen; Lipman, David J; Ostell, James; Sayers, Eric W

2012-01-01

9

GenBank.  

PubMed

GenBank® (http://www.ncbi.nlm.nih.gov) is a comprehensive database that contains publicly available nucleotide sequences for almost 260 000 formally described species. These sequences are obtained primarily through submissions from individual laboratories and batch submissions from large-scale sequencing projects, including whole-genome shotgun (WGS) and environmental sampling projects. Most submissions are made using the web-based BankIt or standalone Sequin programs, and GenBank staff assigns accession numbers upon data receipt. Daily data exchange with the European Nucleotide Archive (ENA) and the DNA Data Bank of Japan (DDBJ) ensures worldwide coverage. GenBank is accessible through the NCBI Entrez retrieval system, which integrates data from the major DNA and protein sequence databases along with taxonomy, genome, mapping, protein structure and domain information, and the biomedical journal literature via PubMed. BLAST provides sequence similarity searches of GenBank and other sequence databases. Complete bimonthly releases and daily updates of the GenBank database are available by FTP. To access GenBank and its related retrieval and analysis services, begin at the NCBI home page: www.ncbi.nlm.nih.gov. PMID:23193287

Benson, Dennis A; Cavanaugh, Mark; Clark, Karen; Karsch-Mizrachi, Ilene; Lipman, David J; Ostell, James; Sayers, Eric W

2013-01-01

10

GenBank.  

PubMed

GenBank(®) (http://www.ncbi.nlm.nih.gov/genbank/) is a comprehensive database that contains publicly available nucleotide sequences for over 300 000 formally described species. These sequences are obtained primarily through submissions from individual laboratories and batch submissions from large-scale sequencing projects, including whole-genome shotgun and environmental sampling projects. Most submissions are made using the web-based BankIt or standalone Sequin programs, and GenBank staff assign accession numbers upon data receipt. Daily data exchange with the European Nucleotide Archive and the DNA Data Bank of Japan ensures worldwide coverage. GenBank is accessible through the NCBI Entrez retrieval system, which integrates data from the major DNA and protein sequence databases along with taxonomy, genome, mapping, protein structure and domain information, and the biomedical journal literature via PubMed. BLAST provides sequence similarity searches of GenBank and other sequence databases. Complete bimonthly releases and daily updates of the GenBank database are available by FTP. PMID:25414350

Benson, Dennis A; Clark, Karen; Karsch-Mizrachi, Ilene; Lipman, David J; Ostell, James; Sayers, Eric W

2015-01-28

11

GenBank.  

PubMed

The GenBank sequence database continues to expand its data coverage, quality control, annotation content and retrieval services for the scientific community. Besides handling direct submissions of sequence data from authors, GenBank also incorporates DNA sequences from all available public sources; an integrated retrieval system, known as Entrez, also makes available data from the major protein sequence and structural databases, and from U.S. and European patents. MIDLINE abstracts from published articles describing the sequences are also included as an additional source of biological annotation for sequence entries. GenBank supports distribution of the data via FTP, CD-ROM, and E-mail servers. Network server-client programs provide access to an integrated database for literature retrieval and sequence similarity searching. PMID:7937042

Benson, D A; Boguski, M; Lipman, D J; Ostell, J

1994-09-01

12

GenYES Resources  

NSDL National Science Digital Library

This link will take you to the Free Resource section of the GenYES website. The resources on this page are all free and downloadable for you to use and share with colleagues in educational institutions. They ask that you not modify them, sell them, or use parts without attributing GenYES. What you'll find on this page:- White papers/Monographs - How-to guides - Research summaries - Presentations- Handouts- Siideshows - Videos GenYES began as a federal Technology Innovation Challenge Grant in the Olympia school district in Washington State in 1996. The vision was to include students in the effort to infuse technology into curriculum in every K-12 classroom. The program is not only still going strong in Olympia, but also has also spread to hundreds of schools throughout the country and around the world. Read the About US page to find out more.

13

tostandoutfromthecrowd? NextGen Immunology  

E-print Network

tostandoutfromthecrowd? Doyouwant NextGen Immunology: The Michael Sela Student and Postdoc Program for Excellence in Immunology Become a leader of NextGen Immunology! The immune system, in addition to its, state-of-the-art immunology is now reemerging as the most rapidly evolving multi-disciplinary biological

Shapiro, Ehud

14

Gen. 431] 431 STADIUM AUTHORITY  

E-print Network

Gen. 431] 431 STADIUM AUTHORITY INDEMNIFICATION AGREEMENTS ) FUNDING REQUIREMENT AND RESTRICTIONS concerning the legal authority of the Maryland Stadium Authority to enter into an indemnification agreement. Specifically, your question is whether "the Stadium Authority [may] fund damages for lease terminations

Maryland, Baltimore County, University of

15

Summary of CPAS Gen II Parachute Analysis  

NASA Technical Reports Server (NTRS)

The Orion spacecraft is currently under development by NASA and Lockheed Martin. Like Apollo, Orion will use a series of parachutes to slow its descent and splashdown safely. The Orion parachute system, known as the CEV Parachute Assembly System (CPAS), is being designed by NASA, the Engineering and Science Contract Group (ESCG), and Airborne Systems. The first generation (Gen I) of CPAS testing consisted of thirteen tests and was executed in the 2007-2008 timeframe. The Gen I tests provided an initial understanding of the CPAS parachutes. Knowledge gained from Gen I testing was used to plan the second generation of testing (Gen II). Gen II consisted of six tests: three singleparachute tests, designated as Main Development Tests, and three Cluster Development Tests. Gen II required a more thorough investigation into parachute performance than Gen I. Higher fidelity instrumentation, enhanced analysis methods and tools, and advanced test techniques were developed. The results of the Gen II test series are being incorporated into the CPAS design. Further testing and refinement of the design and model of parachute performance will occur during the upcoming third generation of testing (Gen III). This paper will provide an overview of the developments in CPAS analysis following the end of Gen I, including descriptions of new tools and techniques as well as overviews of the Gen II tests.

Morris, Aaron L.; Bledsoe, Kristin J.; Fraire, Usbaldo, Jr.; Moore, James W.; Olson, Leah M.; Ray, Eric

2011-01-01

16

FutureGen Project Report  

SciTech Connect

This report summarizes the comprehensive siting, permitting, engineering, design, and costing activities completed by the FutureGen Industrial Alliance, the Department of Energy, and associated supporting subcontractors to develop a first of a kind near zero emissions integrated gasification combined cycle power plant and carbon capture and storage project (IGCC-CCS). With the goal to design, build, and reliably operate the first IGCC-CCS facility, FutureGen would have been the lowest emitting pulverized coal power plant in the world, while providing a timely and relevant basis for coal combustion power plants deploying carbon capture in the future. The content of this report summarizes key findings and results of applicable project evaluations; modeling, design, and engineering assessments; cost estimate reports; and schedule and risk mitigation from initiation of the FutureGen project through final flow sheet analyses including capital and operating reports completed under DOE award DE-FE0000587. This project report necessarily builds upon previously completed siting, design, and development work executed under DOE award DE-FC26- 06NT4207 which included the siting process; environmental permitting, compliance, and mitigation under the National Environmental Policy Act; and development of conceptual and design basis documentation for the FutureGen plant. For completeness, the report includes as attachments the siting and design basis documents, as well as the source documentation for the following: • Site evaluation and selection process and environmental characterization • Underground Injection Control (UIC) Permit Application including well design and subsurface modeling • FutureGen IGCC-CCS Design Basis Document • Process evaluations and technology selection via Illinois Clean Coal Review Board Technical Report • Process flow diagrams and heat/material balance for slurry-fed gasifier configuration • Process flow diagrams and heat/material balance for dry-fed gasifier configuration • Full capital cost report and cost category analysis (CAPEX) • Full operating cost report and assumptions (OPEX) Comparative technology evaluations, value engineering exercises, and initial air permitting activities are also provided; the report concludes with schedule, risk, and cost mitigation activities as well as lessons learned such that the products of this report can be used to support future investments in utility scale gasification and carbon capture and sequestration. Collectively, the FutureGen project enabled the comprehensive site specific evaluation and determination of the economic viability of IGCC-CCS. The project report is bound at that determination when DOE formally proposed the FutureGen 2.0 project which focuses on repowering a pulverized coal power plant with oxy-combustion technology including CCS.

Cabe, Jim; Elliott, Mike

2010-09-30

17

25 Years of GenBank  

MedlinePLUS

... this page please turn Javascript on. Unique DNA database has helped advance scientific discoveries worldwide Since its origin 25 years ago, the database of nucleic acid sequences known as GenBank has ...

18

VIEW OF GEN. LOGAN STATUE LOOKING SOUTHWEST WITH VISTA AS ...  

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

VIEW OF GEN. LOGAN STATUE LOOKING SOUTHWEST WITH VISTA AS TO THE GEN. THOMAS STATUE DOWN VERMONT AVENUE AND THE GEN. SCOTT STATUE DOWN RHODE ISLAND AVENUE IN THE BACKGROUND - Logan Circle, Vermont Avenue, Rhode Island Avenue, & Thirteenth Street, Washington, District of Columbia, DC

19

24/04/2013 Next gen Sequencing technologies  

E-print Network

;1985 Human genome project proposed Start of the project in 1987 24/04/2013Next gen Sequencing technologies 7 "next gen" patents filed 2003 Human genome project finished 2005 first next gen sequencer available The illumina sequencer family: Genome AnalyzerIIx, HiSeq 2500, HiSeq 2000, HiSeq 1500, HiSeq 1000, Hi

Twente, Universiteit

20

The Integrated Airport: Building a Successful NextGen Testbed  

ScienceCinema

This presentation will describe a unique public-private partnership - the Integrated Airport - that was created to engage in research and testing related to NextGen Technology deployment.  NextGen refers to the program that will be initiated to modernize the US National Airspace.  As with any major, multi-decade initiative, such as NextGen, integration of work efforts by multiple partners in the modernization is critical for success.  This talk will focus on the development of the consortium, how the consortium plans for NextGen initiatives, the series of technology demonstrations we have produced and plans for the future of NextGen testing and implementation. 

Christina Frederick-Recascino

2010-01-08

21

Gen IV Materials Handbook Implementation Plan  

SciTech Connect

A Gen IV Materials Handbook is being developed to provide an authoritative single source of highly qualified structural materials information and materials properties data for use in design and analyses of all Generation IV Reactor Systems. The Handbook will be responsive to the needs expressed by all of the principal government, national laboratory, and private company stakeholders of Gen IV Reactor Systems. The Gen IV Materials Handbook Implementation Plan provided here addresses the purpose, rationale, attributes, and benefits of the Handbook and will detail its content, format, quality assurance, applicability, and access. Structural materials, both metallic and ceramic, for all Gen IV reactor types currently supported by the Department of Energy (DOE) will be included in the Gen IV Materials Handbook. However, initial emphasis will be on materials for the Very High Temperature Reactor (VHTR). Descriptive information (e.g., chemical composition and applicable technical specifications and codes) will be provided for each material along with an extensive presentation of mechanical and physical property data including consideration of temperature, irradiation, environment, etc. effects on properties. Access to the Gen IV Materials Handbook will be internet-based with appropriate levels of control. Information and data in the Handbook will be configured to allow search by material classes, specific materials, specific information or property class, specific property, data parameters, and individual data points identified with materials parameters, test conditions, and data source. Details on all of these as well as proposed applicability and consideration of data quality classes are provided in the Implementation Plan. Website development for the Handbook is divided into six phases including (1) detailed product analysis and specification, (2) simulation and design, (3) implementation and testing, (4) product release, (5) project/product evaluation, and (6) product maintenance and enhancement. Contracting of development of the Handbook website is discussed in terms of host server options, cost, technology, developer background and cooperative nature, and company stability. One of the first and most important activities in website development will be the generation of a detailed Handbook product requirements document including case diagrams and functional requirements tables. The Implementation Plan provides a detailed overview of the organizational structure of the Handbook and details of Handbook preparation, publication, and distribution. Finally, the Implementation Plan defines Quality Assurance requirements for the Handbook.

Rittenhouse, P.; Ren, W.

2005-03-29

22

Safety Assurance in NextGen  

NASA Technical Reports Server (NTRS)

The generation of minimum operational, safety, performance, and interoperability requirements is an important aspect of safely integrating new NextGen components into the Communication Navigation Surveillance and Air Traffic Management (CNS/ATM) system. These requirements are used as part of the implementation and approval processes. In addition, they provide guidance to determine the levels of design assurance and performance that are needed for each element of the new NextGen procedures, including aircraft, operator, and Air Navigation and Service Provider. Using the enhanced Airborne Traffic Situational Awareness for InTrail Procedure (ATSA-ITP) as an example, this report describes some limitations of the current process used for generating safety requirements and levels of required design assurance. An alternative process is described, as well as the argument for why the alternative can generate more comprehensive requirements and greater safety assurance than the current approach.

HarrisonFleming, Cody; Spencer, Melissa; Leveson, Nancy; Wilkinson, Chris

2012-01-01

23

GenJam: A Genetic Algorithm for Generating Jazz Solos  

Microsoft Academic Search

This paper describes GenJam, a genetic algorithm-based model of a novice jazz musician learning to improvise. GenJam maintains hierarchically related populations of melodic ideas that are mapped to specific notes through scales suggested by the chord progression being played. As GenJam plays its solos over the accompaniment of a standard rhythm section, a human mentor gives real-time feedback, which is

John A. Biles

1994-01-01

24

Complications Following BellaGen™ Injection  

PubMed Central

BellaGen™ is an injectable acellular dermal matrix granule derived from donated human skin tissue that was recently developed for soft tissue augmentation. Its use has been sporadically reported in penile girth enhancement procedures. Many cases of complications have been reported after injecting acellular dermal matrices like AlloDerm or SureDerm™ but few reports on complications associated with BellaGen™ injection. We report here on penile skin inflammation and necrosis following augmentation phalloplasty with BellaGen™, which developed 3 days after the injection and persisted for more than 2 weeks. The patient had a 15 year history of type 2 diabetes mellitus, and he was treated with oral antibiotics and wet dressings with KMNO4 solution to combine preservation of the remaining penile soft tissue with debridement of avascular tissue. The lesion improved with this treatment, but the patient experienced pain for about 2 weeks. All patients should be informed of the potential complications with the use of injectable acellular dermal matrices before treatment. Patient selection for augmentation is also important to have the most desirable results. PMID:22346264

Park, Mi Kyung; Kim, Hyun Kyu; Park, Kui Young; Li, Kapsok; Hong, Chang Kwun

2011-01-01

25

March 2014 Edition GenCen News and Events  

E-print Network

DIGEST March 2014 Edition -- GenCen News and Events Find GenCen on Facebook Advising Appointment. April 3 Queer Conversations April 10 MSU News and Events The Stuart Hall Project. March 15 13th Annual website Dive In: A Culture Shock Resource Site Other News and Events V-Day Lansing Fundraiser to benefit

26

ProGen: GPHMM for prokaryotic genomes Sharad Akshar Punuganti  

E-print Network

ProGen: GPHMM for prokaryotic genomes Sharad Akshar Punuganti May 10, 2011 Abstract Pro and implemented to train the model and find the genes respectively. ProGen models prokaryotic genome (hence of GPHMMs in the domain of prokaryotic genomes as the genomic structure of prokaryotes is relatively simple

Liblit, Ben

27

College of Agriculture, Food and Environment GEN General Agriculture  

E-print Network

-6) Interdisciplinary, topical or experimental courses offered at the introductory level to be approved by the Dean of Agriculture. GEN 300 SPECIAL COURSE. (1-3) Interdisciplinary, topical or experimental courses to be approved government policy, regulations, laws and decision-making affect the agricultural industry. GEN 401 JOB SEARCH

MacAdam, Keith

28

Towards an International Culture: Gen Y Students and SNS?  

ERIC Educational Resources Information Center

This article reports the findings of a small-scale investigation into the Internet user behaviour of generation Y (Gen Y) students, with particular reference to social networking sites. The study adds to the literature on cross-cultural Internet user behaviour with specific reference to Gen Y and social networking. It compares how a cohort of…

Lichy, Jessica

2012-01-01

29

78 FR 8108 - NextGen Solutions Vendors Guide  

Federal Register 2010, 2011, 2012, 2013, 2014

...Trade Administration NextGen Solutions Vendors Guide AGENCY: International Trade Administration...forth a request for responses from U.S. vendors capable of exporting goods or services...developing a web-based NextGen Solutions Vendors Guide intended to be used by foreign...

2013-02-05

30

TidGen Power System Commercialization Project  

SciTech Connect

ORPC Maine, LLC, a wholly-owned subsidiary of Ocean Renewable Power Company, LLC (collectively ORPC), submits this Final Technical Report for the TidGen® Power System Commercialization Project (Project), partially funded by the U.S. Department of Energy (DE-EE0003647). The Project was built and operated in compliance with the Federal Energy Regulatory Commission (FERC) pilot project license (P-12711) and other permits and approvals needed for the Project. This report documents the methodologies, activities and results of the various phases of the Project, including design, engineering, procurement, assembly, installation, operation, licensing, environmental monitoring, retrieval, maintenance and repair. The Project represents a significant achievement for the renewable energy portfolio of the U.S. in general, and for the U.S. marine hydrokinetic (MHK) industry in particular. The stated Project goal was to advance, demonstrate and accelerate deployment and commercialization of ORPC’s tidal-current based hydrokinetic power generation system, including the energy extraction and conversion technology, associated power electronics, and interconnection equipment capable of reliably delivering electricity to the domestic power grid. ORPC achieved this goal by designing, building and operating the TidGen® Power System in 2012 and becoming the first federally licensed hydrokinetic tidal energy project to deliver electricity to a power grid under a power purchase agreement in North America. Located in Cobscook Bay between Eastport and Lubec, Maine, the TidGen® Power System was connected to the Bangor Hydro Electric utility grid at an on-shore station in North Lubec on September 13, 2012. ORPC obtained a FERC pilot project license for the Project on February 12, 2012 and the first Maine Department of Environmental Protection General Permit issued for a tidal energy project on January 31, 2012. In addition, ORPC entered into a 20-year agreement with Bangor Hydro Electric Company on January 1, 2013 for up to 5 megawatts at a price of $215/MWh, escalating at 2.0% per year.

Sauer, Christopher R. [President & CEO] [President & CEO; McEntee, Jarlath [VP Engineering & CTO] [VP Engineering & CTO

2013-12-30

31

Gen IV Materials Handbook Functionalities and Operation  

SciTech Connect

This document is prepared for navigation and operation of the Gen IV Materials Handbook, with architecture description and new user access initiation instructions. Development rationale and history of the Handbook is summarized. The major development aspects, architecture, and design principles of the Handbook are briefly introduced to provide an overview of its past evolution and future prospects. Detailed instructions are given with examples for navigating the constructed Handbook components and using the main functionalities. Procedures are provided in a step-by-step fashion for Data Upload Managers to upload reports and data files, as well as for new users to initiate Handbook access.

Ren, Weiju [ORNL

2009-12-01

32

Head-Worn Displays for NextGen  

NASA Technical Reports Server (NTRS)

The operating concepts emerging under the Next Generation air transportation system (NextGen) require new technology and procedures - not only on the ground-side - but also on the flight deck. Flight deck display and decision support technologies are specifically targeted to overcome aircraft safety barriers that might otherwise constrain the full realization of NextGen. One such technology is the very lightweight, unobtrusive head-worn display (HWD). HWDs with an integrated head-tracking system are being researched as they offer significant potential benefit under emerging NextGen operational concepts. Two areas of benefit for NextGen are defined. First, the HWD may be designed to be equivalent to the Head-Up Display (HUD) using Virtual HUD concepts. As such, these operational credits may be provided to significantly more aircraft for which HUD installation is neither practical nor possible. Second, the HWD provides unique display capabilities, such as an unlimited field-of-regard. These capabilities may be integral to emerging NextGen operational concepts, eliminating safety issues which might otherwise constrain the full realization of NextGen. The paper details recent research results, current HWD technology limitations, and future technology development needed to realize HWDs as a enabling technology for NextGen.

Bailey, Randall E.; Shelton, Kevin J.; Arthur, J. J.

2011-01-01

33

RxGen General Optical Model Prescription Generator  

NASA Technical Reports Server (NTRS)

RxGen is a prescription generator for JPL's in-house optical modeling software package called MACOS (Modeling and Analysis for Controlled Optical Systems), which is an expert optical analysis software package focusing on modeling optics on dynamic structures, deformable optics, and controlled optics. The objectives of RxGen are to simplify and automate MACOS prescription generations, reducing errors associated with creating such optical prescriptions, and improving user efficiency without requiring MACOS proficiency. RxGen uses MATLAB (a high-level language and interactive environment developed by MathWorks) as the development and deployment platform, but RxGen can easily be ported to another optical modeling/analysis platform. Running RxGen within the modeling environment has the huge benefit that variations in optical models can be made an integral part of the modeling state. For instance, optical prescription parameters determined as external functional dependencies, optical variations by controlling the in-/exclusion of optical components like sub-systems, and/or controlling the state of all components. Combining the mentioned capabilities and flexibilities with RxGen's optical abstraction layer completely eliminates the hindering aspects for requiring proficiency in writing/editing MACOS prescriptions, allowing users to focus on the modeling aspects of optical systems, i.e., increasing productivity and efficiency. RxGen provides significant enhancements to MACOS and delivers a framework for fast prototyping as well as for developing very complex controlled optical systems.

Sigrist, Norbert

2012-01-01

34

Head-worn displays for NextGen  

NASA Astrophysics Data System (ADS)

The operating concepts emerging under the Next Generation air transportation system (NextGen) require new technology and procedures - not only on the ground-side - but also on the flight deck. Flight deck display and decision support technologies are specifically targeted to overcome aircraft safety barriers that might otherwise constrain the full realization of NextGen. One such technology is the very lightweight, unobtrusive head-worn display (HWD). HWDs with an integrated head-tracking system are being researched as they offer significant potential benefit under emerging NextGen operational concepts. Two areas of benefit for NextGen are defined. First, the HWD may be designed to be equivalent to the Head-Up Display (HUD) using Virtual HUD concepts. As such, these operational credits may be provided to significantly more aircraft for which HUD installation is neither practical nor possible. Second, the HWD provides unique display capabilities, such as an unlimited field-of-regard. These capabilities may be integral to emerging NextGen operational concepts, eliminating safety issues which might otherwise constrain the full realization of NextGen. The paper details recent research results, current HWD technology limitations, and future technology development needed to realize HWDs as a enabling technology for NextGen.

Bailey, Randall E.; Shelton, Kevin J.; Arthur, J. J., III

2011-06-01

35

NextGen Future Safety Assessment Game  

NASA Technical Reports Server (NTRS)

The successful implementation of the next generation infrastructure systems requires solid understanding of their technical, social, political and economic aspects along with their interactions. The lack of historical data that relate to the long-term planning of complex systems introduces unique challenges for decision makers and involved stakeholders which in turn result in unsustainable systems. Also, the need to understand the infrastructure at the societal level and capture the interaction between multiple stakeholders becomes important. This paper proposes a methodology in order to develop a holistic approach aiming to provide an alternative subject-matter expert (SME) elicitation and data collection method for future sociotechnical systems. The methodology is adapted to Next Generation Air Transportation System (NextGen) decision making environment in order to demonstrate the benefits of this holistic approach.

Ancel, Ersin; Gheorghe, Adian; Jones, Sharon Monica

2010-01-01

36

98. SWITCH HOUSE MAIN LOBBY, GEN 3 CIRCUIT BREAKER, VIEW ...  

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

98. SWITCH HOUSE MAIN LOBBY, GEN 3 CIRCUIT BREAKER, VIEW OF OPPOSITE SIDE FROM HAER No. PA-505-97 - Delaware County Electric Company, Chester Station, Delaware River at South end of Ward Street, Chester, Delaware County, PA

37

1. GENERAL VIEW. Statues: Maj. Gen George Meade by Daniel ...  

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

1. GENERAL VIEW. Statues: Maj. Gen George Meade by Daniel Chester French, south side; Maj. Gen. John Reynolds by Charles Grafly, north side. Equestrian Statues: Maj. Gen George B. McClellan by Edward C. Potter, south side; Maj. Gen Winfield S. Hancock by J.Q.A. Ward, north side. The statue at the base of northern inner pedestal is Richard Smith, a type founder and donor of the Memorial. The niches are filled with eight colossal busts including Union generals, admirals, Pennsylvania governor, Memorial's architects (John T. and James H. Windrim), and executor of Smith's will. The frieze is carved with the names of eighty-four prominent Pennsylvania participants in the Civil War. - Smith Memorial Arch, Philadelphia, Philadelphia County, PA

38

EPCGen2 pseudorandom number generators: analysis of J3Gen.  

PubMed

This paper analyzes the cryptographic security of J3Gen, a promising pseudo random number generator for low-cost passive Radio Frequency Identification (RFID) tags. Although J3Gen has been shown to fulfill the randomness criteria set by the EPCglobal Gen2 standard and is intended for security applications, we describe here two cryptanalytic attacks that question its security claims: (i) a probabilistic attack based on solving linear equation systems; and (ii) a deterministic attack based on the decimation of the output sequence. Numerical results, supported by simulations, show that for the specific recommended values of the configurable parameters, a low number of intercepted output bits are enough to break J3Gen. We then make some recommendations that address these issues. PMID:24721767

Peinado, Alberto; Munilla, Jorge; Fúster-Sabater, Amparo

2014-01-01

39

Parachloroidium gen. nov. (Trebouxiophyceae, Chlorophyta), a novel genus of coccoid green algae from subaerial corticolous biofilms  

E-print Network

Parachloroidium gen. nov. (Trebouxiophyceae, Chlorophyta), a novel genus of coccoid green algae. Parachloroidium gen. nov. (Trebouxiophyceae, Chlorophyta), a novel genus of coccoid green algae from subaerial the Parachloroidium strains from other similar green algae. However, ultrastructural characteristics and molecular

40

A Virtual Reality Framework to Optimize Design, Operation and Refueling of GEN-IV Reactors.  

SciTech Connect

many GEN-IV candidate designs are currently under investigation. Technical issues related to material, safety and economics are being addressed at research laboratories, industry and in academia. After safety, economic feasibility is likely to be the most important crterion in the success of GEN-IV design(s). Lessons learned from the designers and operators of GEN-II (and GEN-III) reactors must play a vital role in achieving both safety and economic feasibility goals.

Rizwan-uddin; Nick Karancevic; Stefano Markidis; Joel Dixon; Cheng Luo; Jared Reynolds

2008-04-23

41

Mutation and association analysis of GEN1 in breast cancer susceptibility  

Microsoft Academic Search

GEN1 was recently identified as a key Holliday junction resolvase involved in homologous recombination. Somatic truncating\\u000a GEN1 mutations have been reported in two breast cancers. Together these data led to the proposition that GEN1 is a breast cancer predisposition gene. In this article we have formally investigated this hypothesis. We performed full-gene\\u000a mutational analysis of GEN1 in 176 BRCA1\\/2-negative familial

Clare Turnbull; Sarah Hines; Anthony Renwick; Deborah Hughes; David Pernet; Anna Elliott; Sheila Seal; Margaret Warren-Perry; D. Gareth Evans; Diana Eccles; Michael R. Stratton; Nazneen Rahman

2010-01-01

42

HydroGen: Automatically Generating Self-Assembly Code for Hydron Units  

E-print Network

HydroGen: Automatically Generating Self-Assembly Code for Hydron Units George Konidaris, Tim Taylor, jhallamg@inf.ed.ac.uk Abstract. This paper introduces HydroGen, an object compiler system that produces, and are thus free of the constraints of gravity. This system, called HydroGen, is therefore able to assemble

Massachusetts at Amherst, University of

43

Training trust in automation within a NextGen environment  

NASA Astrophysics Data System (ADS)

The projected increase in air traffic density has led to the development of NextGen that is expected to revolutionize the way the NAS is currently functioning. For NextGen to be implemented successfully, it is important to understand the humanautomation relationship within a complex system. Controllers will have to rely on automated tools to successfully manage aircraft in their sector. Increasing human trust in automation can lead to an increase in automation acceptance and its proper use. However, we are not aware of any research studies that have attempted to directly train individuals to trust automation. We report on an attempt to train 8 novice air traffic controllers to trust the automated NextGen tools in a radar internship course. Although the results were not statistically significant, the trend in the data suggests that it may be possible to train trust in automation.

Higham, Tiana-Lynn M.

44

DOE/NNSA perspective safeguard by design: GEN III/III+ light water reactors and beyond  

SciTech Connect

An overview of key issues relevant to safeguards by design (SBD) for GEN III/IV nuclear reactors is provided. Lessons learned from construction of typical GEN III+ water reactors with respect to SBD are highlighted. Details of SBD for safeguards guidance development for GEN III/III+ light water reactors are developed and reported. This paper also identifies technical challenges to extend SBD including proliferation resistance methodologies to other GEN III/III+ reactors (except HWRs) and GEN IV reactors because of their immaturity in designs.

Pan, Paul Y [Los Alamos National Laboratory

2010-12-10

45

GenAnneal: Genetically modified Simulated Annealing  

NASA Astrophysics Data System (ADS)

A modification of the standard Simulated Annealing (SA) algorithm is presented for finding the global minimum of a continuous multidimensional, multimodal function. We report results of computational experiments with a set of test functions and we compare to methods of similar structure. The accompanying software accepts objective functions coded both in Fortran 77 and C++. Program summaryTitle of program:GenAnneal Catalogue identifier:ADXI_v1_0 Program summary URL:http://cpc.cs.qub.ac.uk/summaries/ADXI_v1_0 Program available from: CPC Program Library, Queen's University of Belfast, N. Ireland Computer for which the program is designed and others on which it has been tested: The tool is designed to be portable in all systems running the GNU C++ compiler Installation: University of Ioannina, Greece on Linux based machines Programming language used:GNU-C++, GNU-C, GNU Fortran 77 Memory required to execute with typical data: 200 KB No. of bits in a word: 32 No. of processors used: 1 Has the code been vectorized or parallelized?: No No. of bytes in distributed program, including test data, etc.:84 885 No. of lines in distributed program, including test data, etc.:14 896 Distribution format: tar.gz Nature of physical problem: A multitude of problems in science and engineering are often reduced to minimizing a function of many variables. There are instances that a local optimum does not correspond to the desired physical solution and hence the search for a better solution is required. Local optimization techniques are frequently trapped in local minima. Global optimization is hence the appropriate tool. For example, solving a non-linear system of equations via optimization, employing a "least squares" type of objective, one may encounter many local minima that do not correspond to solutions (i.e. they are far from zero). Typical running time: Depending on the objective function. Method of solution: We modified the process of step selection that the traditional Simulated Annealing employs and instead we used a global technique based on grammatical evolution.

Tsoulos, Ioannis G.; Lagaris, Isaac E.

2006-05-01

46

An electronic flight bag for NextGen avionics  

NASA Astrophysics Data System (ADS)

The introduction of the Next Generation Air Transportation System (NextGen) initiative by the Federal Aviation Administration (FAA) will impose new requirements for cockpit avionics. A similar program is also taking place in Europe by the European Organisation for the Safety of Air Navigation (Eurocontrol) called the Single European Sky Air Traffic Management Research (SESAR) initiative. NextGen will require aircraft to utilize Automatic Dependent Surveillance-Broadcast (ADS-B) in/out technology, requiring substantial changes to existing cockpit display systems. There are two ways that aircraft operators can upgrade their aircraft in order to utilize ADS-B technology. The first is to replace existing primary flight displays with new displays that are ADS-B compatible. The second, less costly approach is to install an advanced Class 3 Electronic Flight Bag (EFB) system. The installation of Class 3 EFBs in the cockpit will allow aircraft operators to utilize ADS-B technology in a lesser amount of time with a decreased cost of implementation and will provide additional benefits to the operator. This paper describes a Class 3 EFB, the NexisTM Flight-Intelligence System, which has been designed to allow users a direct interface with NextGen avionics sensors while additionally providing the pilot with all the necessary information to meet NextGen requirements.

Zelazo, D. Eyton

2012-06-01

47

Biogas Purification Process to Increase Gen—Set Efficiency  

NASA Astrophysics Data System (ADS)

Because of global issue about limited energy, biogas was one of alternative energy and save energy in the world which produced from biomass especially from cow manure. Most of biogas which produced from cow manure contains 40-75% methane as energy resources and another gas as impurities. Methane concentration of biogas has relation with biogas energy value, especially for application as fuel of electricity conversion using gen-set. For increasing gen-set efficiency can be held by increasing methane concentration of biogas using biogas purification process. Biogas purification process can be held by adsorption system which using activated zeolite as absorber. After biogas through the purification system, methane concentration was increasing and impacting to gen-set efficiency especially voltage value was increasing until 22 times in average better than without purification and keeping power stability, so it will produce electricity conversion until 39,07% of practical and 38,09% of equation calculation from maximum electric power output of gen-set.

Krido Wahono, Satriyo; Maryana, Roni; Kismurtono, M.

2009-09-01

48

Safer Systems: A NextGen Aviation Safety Strategic Goal  

NASA Technical Reports Server (NTRS)

The Joint Planning and Development Office (JPDO), is charged by Congress with developing the concepts and plans for the Next Generation Air Transportation System (NextGen). The National Aviation Safety Strategic Plan (NASSP), developed by the Safety Working Group of the JPDO, focuses on establishing the goals, objectives, and strategies needed to realize the safety objectives of the NextGen Integrated Plan. The three goal areas of the NASSP are Safer Practices, Safer Systems, and Safer Worldwide. Safer Practices emphasizes an integrated, systematic approach to safety risk management through implementation of formalized Safety Management Systems (SMS) that incorporate safety data analysis processes, and the enhancement of methods for ensuring safety is an inherent characteristic of NextGen. Safer Systems emphasizes implementation of safety-enhancing technologies, which will improve safety for human-centered interfaces and enhance the safety of airborne and ground-based systems. Safer Worldwide encourages coordinating the adoption of the safer practices and safer systems technologies, policies and procedures worldwide, such that the maximum level of safety is achieved across air transportation system boundaries. This paper introduces the NASSP and its development, and focuses on the Safer Systems elements of the NASSP, which incorporates three objectives for NextGen systems: 1) provide risk reducing system interfaces, 2) provide safety enhancements for airborne systems, and 3) provide safety enhancements for ground-based systems. The goal of this paper is to expose avionics and air traffic management system developers to NASSP objectives and Safer Systems strategies.

Darr, Stephen T.; Ricks, Wendell R.; Lemos, Katherine A.

2008-01-01

49

AnoGen: A Program for Generating ANOVA Data Sets.  

ERIC Educational Resources Information Center

Describes a computer program called AnoGen that automates the process of generating data sets for ANOVA designs and operates within DOS and Windows compatible computers. Explains that the program runs in both student and teacher modes and is freely available for noncommercial use through the Internet. (CMK)

Miller, Jeff

1999-01-01

50

EnGenIUS -- Environmental Genome Informational Utility System.  

PubMed

Short-insert shotgun sequencing approaches have been applied in recent years to environmental genomic libraries. In the case of complex multispecies microbial communities, there can be many sequence reads that are not incorporated into assemblies, and thus need to be annotated and accessible as single reads. Most existing annotation systems and genome databases accommodate assembled genomes containing contiguous gene-encoding sequences. Thus, a solution is required that can work effectively with environmental genomic annotation information to facilitate data analysis. The Environmental Genome Informational Utility System (EnGenIUS) is a comprehensive environmental genome (metagenome) research toolset that was specifically designed to accommodate the needs of large (> 250 K sequence reads) environmental genome sequencing efforts. The core EnGenIUS modules consist of a set of UNIX scripts and PHP programs used for data preprocessing, an annotation pipeline with accompanying analysis tools, two entity relational databases, and a graphical user interface. The annotation pipeline has a modular structure and can be customized to best fit input data set properties. The integrated entity relational databases store raw data and annotation analysis results. Access to the underlying databases and services is facilitated through a web-based graphical user interface. Users have the ability to browse, upload, download, and analyze preprocessed data, based on diverse search criteria. The EnGenIUS toolset was successfully tested using the Alvinella pompejana epibiont environmental genome data set, which comprises more than 300 K sequence reads. A fully browsable EnGenIUS portal is available at (http://ocean.dbi.udel.edu/) (access code: "guest"). The scope of this paper covers the implementation details and technical aspects of the EnGenIUS toolset. PMID:19090024

Kaplarevic, Mihailo; Murray, Alison E; Cary, Stephen C; Gao, Guang R

2008-12-01

51

J3Gen: A PRNG for Low-Cost Passive RFID  

PubMed Central

Pseudorandom number generation (PRNG) is the main security tool in low-cost passive radio-frequency identification (RFID) technologies, such as EPC Gen2. We present a lightweight PRNG design for low-cost passive RFID tags, named J3Gen. J3Gen is based on a linear feedback shift register (LFSR) configured with multiple feedback polynomials. The polynomials are alternated during the generation of sequences via a physical source of randomness. J3Gen successfully handles the inherent linearity of LFSR based PRNGs and satisfies the statistical requirements imposed by the EPC Gen2 standard. A hardware implementation of J3Gen is presented and evaluated with regard to different design parameters, defining the key-equivalence security and nonlinearity of the design. The results of a SPICE simulation confirm the power-consumption suitability of the proposal. PMID:23519344

Melià-Seguí, Joan; Garcia-Alfaro, Joaquin; Herrera-Joancomartí, Jordi

2013-01-01

52

Advanced Vehicle Concepts and Implications for NextGen  

NASA Technical Reports Server (NTRS)

This report presents the results of a major NASA study of advanced vehicle concepts and their implications for the Next Generation Air Transportation System (NextGen). Comprising the efforts of dozens of researchers at multiple institutions, the analyses presented here cover a broad range of topics including business-case development, vehicle design, avionics, procedure design, delay, safety, environmental impacts, and metrics. The study focuses on the following five new vehicle types: Cruise-efficient short takeoff and landing (CESTOL) vehicles Large commercial tiltrotor aircraft (LCTRs) Unmanned aircraft systems (UAS) Very light jets (VLJs) Supersonic transports (SST). The timeframe of the study spans the years 2025-2040, although some analyses are also presented for a 3X scenario that has roughly three times the number of flights as today. Full implementation of NextGen is assumed.

Blake, Matt; Smith, Jim; Wright, Ken; Mediavilla Ricky; Kirby, Michelle; Pfaender, Holger; Clarke, John-Paul; Volovoi, Vitali; Dorbian, Christopher; Ashok, Akshay; Reynolds, Tom; Waitz, Ian; Hileman, James; Arunachalam, Sarav; Hedrick, Matt; Vempati, Lakshmi; Laroza, Ryan; denBraven, Wim; Henderson, Jeff

2010-01-01

53

Radio Transmission Performance of EPCglobal Gen-2 RFID System  

E-print Network

In this paper, we analyze the performance of the encoding and the modulation processes in the downlink and uplink of the EPCglobal Gen2 system through the analysis and simulation. Furthermore, the synchronization issues on time and frequency domain and the preamble architecture are evaluated. Through the simulation in the uplink, we find that the detection probability of FM0 and Miller coding approaches 1 at 13dB Eb/N0.

Mohaisen, Manar; Chang, KyungHi

2009-01-01

54

GEN IV reactors: Where we are, where we should go  

SciTech Connect

GEN IV power plants represent the mid-long term option of the nuclear sector. International literature proposes many papers and reports dealing with these reactors, but there is an evident difference of type and shape of information making impossible each kind of detailed comparison. Moreover, authors are often strongly involved in some particular design; this creates many difficulties in their super-partes position. Therefore it is necessary to put order in the most relevant information to understand strengths and weaknesses of each design and derive an overview useful for technicians and policy makers. This paper presents the state-of the art for GEN IV nuclear reactors providing a comprehensive literature review of the different designs with a relate taxonomy. It presents the more relevant references, data, advantages, disadvantages and barriers to the adoptions. In order to promote an efficient and wide adoption of GEN IV reactors the paper provides the pre-conditions that must be accomplished, enabling factors promoting the implementation and barriers limiting the extent and intensity of its implementation. It concludes outlying the state of the art of the most important R and D areas and the future achievements that must be accomplished for a wide adoption of these technologies. (authors)

Locatelli, G. [Univ. of Lincoln, Lincoln School of Engineering, Brayford Pool - Lincoln LN6 7TS (United Kingdom); Mancini, M.; Todeschini, N. [Politecnico di Milano, Dept. of Management, Economics and Industrial Engineering, Via Lambruschini 4/B, Milano (Italy)

2012-07-01

55

Pantanalinema gen. nov. and Alkalinema gen. nov.: novel pseudanabaenacean genera (Cyanobacteria) isolated from saline-alkaline lakes.  

PubMed

The genus Leptolyngbya Anagnostidis & Komárek (1988) was described from a set of strains identified as 'LPP-group B'. The morphology within this group is not particularly informative and underestimates the group's genetic diversity. In the present study, two new pseudanabaenacean genera related to Leptolyngbya morphotypes, Pantanalinema gen. nov. and Alkalinema gen. nov., are described under the provisions of the International Code of Nomenclature for Algae, Fungi and Plants, based on a polyphasic approach. Pantanalinema gen. nov. (type species Pantanalinema rosaneae sp. nov.) has sheaths and trichomes with slight gliding motility, which distinguish this genus from Alkalinema gen. nov. (type species Alkalinema pantanalense sp. nov.), which possesses trichomes arranged in an ornate (interwoven) pattern. 16S rRNA gene sequences of strains of Pantanalinema and Alkalinema exhibited low identity to each other (?91.6?%) and to other sequences from known pseudanabaenacean genera (?94.3 and 93.7?%, respectively). In a phylogenetic reconstruction, six sequences from strains of Pantanalinema and four from strains of Alkalinema formed two separate and robust clades (99?% bootstrap value), with the genera Oculatella and Phormidesmis, respectively, as the closest related groups. 16S-23S rRNA intergenic spacer sequences and secondary structures of strains of Pantanalinema and Alkalinema did not correspond to any previous descriptions. The strains of Pantanalinema and Alkalinema were able to survive and produce biomass at a range of pH (pH 4-11) and were also able to alter the culture medium to pH values ranging from pH 8.4 to 9.9. These data indicate that cyanobacterial communities in underexplored environments, such as the Pantanal wetlands, are promising sources of novel taxa. PMID:25351877

Vaz, Marcelo Gomes Marçal Vieira; Genuário, Diego Bonaldo; Andreote, Ana Paula Dini; Malone, Camila Francieli Silva; Sant'Anna, Célia Leite; Barbiero, Laurent; Fiore, Marli Fátima

2015-01-01

56

GEN | News Highlights: Scientists Develop High-Capacity Nanoparticles for Targeted Delivery of Drug Cocktails http://www.genengnews.com/gen-news-highlights/scientists-develop-high-capacity-nanoparticles-for-targeted-delivery-of-drug-cocktails/81245016/[4/  

E-print Network

GEN | News Highlights: Scientists Develop High-Capacity Nanoparticles for Targeted Delivery of Drug Cocktails http://www.genengnews.com/gen-news-highlights/scientists-develop NEWS Blogs Podcasts Webinars Videos New Products Best of the Web Events Jobs Polls App Notes GEN

Brinker, C. Jeffrey

57

Ellis-Monaghan & Sarmiento Page 1 of 1 Gen. Transition Polys. Generalized Transition Polynomials  

E-print Network

Ellis-Monaghan & Sarmiento Page 1 of 1 Gen. Transition Polys. Generalized Transition Polynomials Joanna A. Ellis-Monaghan Department of Mathematics and Statistics Saint Michael's College is a commutative ring with unit. #12;Ellis-Monaghan & Sarmiento Page 2 of 2 Gen. Transition Polys

Ellis-Monaghan, Joanna

58

EllisMonaghan & Sarmiento Page 1 of 1 Gen. Transition Polys. Generalized Transition Polynomials  

E-print Network

Ellis­Monaghan & Sarmiento Page 1 of 1 Gen. Transition Polys. Generalized Transition Polynomials Joanna A. Ellis­Monaghan Department of Mathematics and Statistics Saint Michael's College bialgebra [ ] R x , where R is a commutative ring with unit. #12; Ellis­Monaghan & Sarmiento Page 2 of 2 Gen

Ellis-Monaghan, Joanna

59

Dual Field Communication Scheme for UHF (860–960 MHz) Gen2 RFID Chip  

Microsoft Academic Search

The proposed UHF Gen2 RFID chip expands its applications to both FFC and NFC through dual field communication scheme with the dual antenna ports. An RF front end circuit with dual field communication antenna ports and the embedded FeRAM technology on the passive UHF Gen2 RFID chip enables the excellent operating performances and the low cost chip for the tag

Hee-Bok Kang; Bok-Gil Choi; Man Young Sung; Jinyong Chung

2011-01-01

60

48. Molekulare Analyse des dorsal-Gens bei der Honigbiene (Apis mellifera). GangGang  

E-print Network

48. Molekulare Analyse des dorsal-Gens bei der Honigbiene (Apis mellifera). GangGang Chena Xiang vor. Obwohl der Apis-Embryo ebenso wie der von Dro- sophila zum Typus Langkeim gehört, sind in der-Gradienten bei Arthropoden erweitern könnte. Wir versuchten, das Apis- dorsal-Gen zu klonieren. Mit Hilfe dege

Paris-Sud XI, Université de

61

The influence of gender, social cause, charitable support, and message appeal on Gen Y's responses to cause-related marketing  

Microsoft Academic Search

This study examined the influence of gender, type of social cause, amount of charitable support, and message appeal on Gen Y consumers' attitudes and purchase intentions towards an apparel brand within the context of cause-related marketing. A questionnaire, with an experimental design component, was administered to a sample of 562 Gen Y college students. Results suggest that Gen Y consumers

Karen H. Hyllegard; Ruoh-Nan Yan; Jennifer Paff Ogle; Julianne Attmann

2010-01-01

62

GRAIL and GenQuest Sequence Annotation Tools  

SciTech Connect

Our goal is to develop and implement an integrated intelligent system which can recognize biologically significant features in DNA sequence and provide insight into the organization and function of regions of genomic DNA. GRAIL is a modular expert system which facilitates the recognition of gene features and provides an environment for the construction of sequence annotation. The last several years have seen a rapid evolution of the technology for analyzing genomic DNA sequences. The current GRAIL systems (including the e-mail, XGRAIL, JAVA-GRAIL and genQuest systems) are perhaps the most widely used, comprehensive, and user friendly systems available for computational characterization of genomic DNA sequence.

Xu, Ying; Shah, Manesh B.; Einstein, J. Ralph; Parang, Morey; Snoddy, Jay; Petrov, Sergey; Olman, Victor; Zhang, Ge; Mural, Richard J.; Uberbacher, Edward C.

1997-12-31

63

Dolosicoccus paucivorans gen. nov., sp. nov., isolated from human blood.  

PubMed

Phenotypic and phylogenetic studies were performed on a hitherto undescribed Gram-positive, catalase-negative, chain-forming coccus isolated from human blood. Comparative 16S rRNA gene sequencing studies demonstrated that the unknown organism constitutes a new phylogenetic line, close to, but distinct from, Facklamia and Globicatella. The unknown bacterium was readily distinguished from currently recognized Facklamia species and Globicatella sanguinis by biochemical tests and electrophoretic analysis of whole-cell proteins. On the basis of phylogenetic and phenotypic evidence, it is proposed that the unknown bacterium be classified as Dolosicoccus paucivorans gen. nov., sp. nov. The type strain of Dolosicoccus paucivorans is CCUG 39307T. PMID:10555324

Collins, M D; Rodriguez Jovita, M; Hutson, R A; Falsen, E; Sjödén, B; Facklam, R R

1999-10-01

64

Meloneis Gen. Nov., a New Epipsammic Genus of Rhaphoneidaceae (Bacillariophyceae)  

PubMed Central

The diatom family Rhaphoneidaceae is characterized by high generic diversity and low species diversity with most genera known to have long stratigraphic ranges. The genera within this family are neritic marine, and mostly epipsammic. A new modern and epipsammic genus, Meloneis gen. nov., is described herein and is compared to all genera within Rhaphoneidaceae and especially to Rhaphoneis Ehrenberg s.l. Within Meloneis three new species and one variety are distinguished and described herein: M. mimallis sp. nov., M. mimallis var. zephyria var. nov., M. akytos sp. nov., and M. gorgis sp. nov. PMID:22442663

Louvrou, Ioanna; Danielidis, Daniel B.; Economou-Amilli, Athena

2012-01-01

65

TelDB: GenLink Multimedia Telomere Resource  

NSDL National Science Digital Library

This TelDB metasite provides information on telomere research and a searchable citations database, including over 1100 telomere-related citations from 200 journals. TelDB is part of GenLink, an NIH-funded resource headed by researchers at Washington University at St. Louis. There has been a recent finding regarding telomerase, a gene which affects the mechanisms controlling human cell replication. The site above provides general information on telomerase, current telomere research, and the use of telemorase in medical practice. Telomerase increases the life-span of a cell, and is thus central to both aging and cancer.

1995-01-01

66

Hunting for new restriction enzymes in GenBank  

SciTech Connect

Restriction enzyme genes are hard to identify unless their surrounding sequences are available. This is because the best definition of a restriction enzyme gene is an open reading frame, that looks like nothing else in GenBank, but lies close to a DNA methylase gene. There are other clues too, such as nearby reading frames that code control proteins or the DNA specificity subunits of Type I restriction enzymes. We are developing software that searches the daily updates of GenBank to find candidate restriction enzyme genes. This is being followed by bench experiments to see of the predictions are correct. More than 50 potential new restriction enzymes have been predicted and it is quite remarkable that the density of restriction enzyme genes in microbial DNA is greater than one system per 200 Kb. The software development is emphasizing the graphic presentation of the search results. The approach could be used for other situations where a molecular biologist is interested to find new examples of their favorite genes.

Roberts, R.J. [New England Biolabs, Inc., Beverly, MA (United States)

1997-12-01

67

GenGIS: A geospatial information system for genomic data  

PubMed Central

The increasing availability of genetic sequence data associated with explicit geographic and ecological information is offering new opportunities to study the processes that shape biodiversity. The generation and testing of hypotheses using these data sets requires effective tools for mathematical and visual analysis that can integrate digital maps, ecological data, and large genetic, genomic, or metagenomic data sets. GenGIS is a free and open-source software package that supports the integration of digital map data with genetic sequences and environmental information from multiple sample sites. Essential bioinformatic and statistical tools are integrated into the software, allowing the user a wide range of analysis options for their sequence data. Data visualizations are combined with the cartographic display to yield a clear view of the relationship between geography and genomic diversity, with a particular focus on the hierarchical clustering of sites based on their similarity or phylogenetic proximity. Here we outline the features of GenGIS and demonstrate its application to georeferenced microbial metagenomic, HIV-1, and human mitochondrial DNA data sets. PMID:19635847

Parks, Donovan H.; Porter, Michael; Churcher, Sylvia; Wang, Suwen; Blouin, Christian; Whalley, Jacqueline; Brooks, Stephen; Beiko, Robert G.

2009-01-01

68

Structural and Magnetic Properties of CoGen (-) (n=2-11) Clusters: Photoelectron Spectroscopy and Density Functional Calculations.  

PubMed

A series of cobalt-doped germanium clusters, CoGen (-/0) (n=2-11), are investigated by using anion photoelectron spectroscopy combined with density functional theory calculations. For both anionic and neutral CoGen (n=2-11) clusters, the critical size of the transition from exo- to endohedral structures is n=9. Natural population analysis shows that there is electron transfer from the Gen framework to the Co atom at n=7-11 for both anionic and neutral CoGen clusters. The magnetic moments of the anionic and neutral CoGen clusters decrease to the lowest values at n=10 and 11. The transfer of electrons from the Gen framework to the Co atom and the minimization of the magnetic moments are related to the evolution of CoGen structures from exo- to endohedral. PMID:25294751

Deng, Xiao-Jiao; Kong, Xiang-Yu; Xu, Xi-Ling; Xu, Hong-Guang; Zheng, Wei-Jun

2014-12-15

69

Mutation and association analysis of GEN1 in breast cancer susceptibility  

PubMed Central

GEN1 was recently identified as a key Holliday junction resolvase involved in homologous recombination. Somatic truncating GEN1 mutations have been reported in two breast cancers. Together these data led to the proposition that GEN1 is a breast cancer predisposition gene. In this article we have formally investigated this hypothesis. We performed full-gene mutational analysis of GEN1 in 176 BRCA1/2-negative familial breast cancer samples and 159 controls. We genotyped six SNPs tagging the 30 common variants in the transcribed region of GEN1 in 3,750 breast cancer cases and 4,907 controls. Mutation analysis revealed one truncating variant, c.2515_2519del-AAGTT, which was present in 4% of cases and 4% of controls. We identified control individuals homozygous for the deletion, demonstrating that the last 69 amino acids of GEN1 are dispensable for its function. We identified 17 other variants, but their frequency did not significantly differ between cases and controls. Analysis of 3,750 breast cancer cases and 4,907 controls demonstrated no evidence of significant association with breast cancer for six SNPs tagging the 30 common GEN1 variants. These data indicate that although it also plays a key role in double-strand DNA break repair, GEN1 does not make an appreciable contribution to breast cancer susceptibility by acting as a high- or intermediate-penetrance breast cancer predisposition gene like BRCA1, BRCA2, CHEK2, ATM, BRIP1 and PALB2 and that common GEN1 variants do not act as low-penetrance susceptibility alleles analogous to SNPs in FGFR2. Furthermore, our analyses demonstrate the importance of undertaking appropriate genetic investigations, typically full gene screening in cases and controls together with large-scale case–control association analyses, to evaluate the contribution of genes to cancer susceptibility. PMID:20512659

Turnbull, Clare; Hines, Sarah; Renwick, Anthony; Hughes, Deborah; Pernet, David; Elliott, Anna; Seal, Sheila; Warren-Perry, Margaret; Evans, D. Gareth; Eccles, Diana; Stratton, Michael R.

2013-01-01

70

What Can a Historian Do with AstroGen?  

NASA Astrophysics Data System (ADS)

"Astrogen", the Astronomy Genealogy Project, is in the development stage. Patterned after the Mathematics Genealogy Project at http://genealogy.math.ndsu.nodak.edu, it will eventually include most of the world's astronomers, past and present, and provide information about their years of life, highest degrees, universities, and thesis titles. There will also be links to online theses, home pages, and obituaries when these are available. Although a few details remain to be worked out before it becomes public, it is possible to make some use of what has already been compiled. I will give an example, comparing graduates of Harvard University, the University of California at Berkeley, and the University of Chicago from different decades, with information about their professional careers and publication records. The author welcomes queries about AstroGen and is seeking more participants.

Tenn, Joseph S.

2015-01-01

71

Decay heat removal in GEN IV gas cooled fast reactors.  

SciTech Connect

The safety goal of the current designs of advanced high-temperature thermal gas-cooled reactors (HTRs) is that no core meltdown would occur in a depressurization event with a combination of concurrent safety system failures. This study focused on the analysis of passive decay heat removal (DHR) in a GEN IV direct-cycle gas-cooled fast reactor (GFR) which is based on the technology developments of the HTRs. Given the different criteria and design characteristics of the GFR, an approach different from that taken for the HTRs for passive DHR would have to be explored. Different design options based on maintaining core flow were evaluated by performing transient analysis of a depressurization accident using the system code RELAP5-3D. The study also reviewed the conceptual design of autonomous systems for shutdown decay heat removal and recommends that future work in this area should be focused on the potential for Brayton cycle DHRs.

Cheng, L. Y.; Wei, T. Y. C. (Nuclear Engineering Division); (BNL)

2009-08-01

72

PopGen: A virtual human population generator.  

PubMed

The risk assessment of environmental chemicals and drugs is moving towards a paradigm shift in approach which seeks the full replacement animal testing with high throughput, mechanistic, in vitro systems. This new vision will be reliant on the measurement in vitro, of concentration-dependent responses where prolonged excessive perturbations of specific biochemical pathways are likely to lead to adverse health effects in an intact organism. Such an approach requires a framework, into which disparate data generated using in vitro, in silico and in chemico systems, can be integrated and utilised for quantitative in vitro-to-in vivo extrapolation (QIVIVE), ultimately to the human population level. Physiologically based pharmacokinetic (PBPK) models are ideally suited for this and are obligatory in order to translate in vitro concentration-response relationships to an exposure or dose, route and duration regime in people. In this report we describe PopGen, a virtual human population generator which is a user friendly, open access web-based application for the prediction of realistic anatomical, physiological and phase 1 metabolic variation in a wide range of healthy human populations. We demonstrate how PopGen can be used for QIVIVE by providing input to a PBPK model, at an appropriate level of detail, to reconstruct exposure from human biomonitoring data. We discuss how the process of exposure reconstruction from blood biomarkers, in general, is analogous to exposure or dose reconstruction from concentration-response measurements made in proposed in vitro cell based systems which are assumed to be surrogates for target organs. PMID:23876857

McNally, Kevin; Cotton, Richard; Hogg, Alex; Loizou, George

2014-01-01

73

New records of the Cryphonectriaceae from southern Africa including Latruncellus aurorae gen. sp. nov.  

E-print Network

New records of the Cryphonectriaceae from southern Africa including Latruncellus aurorae gen. sp in Africa. Surveys in the past 3 y in southern Africa have led to the discovery of cankers with fruiting

74

GenBank and PubMed: How connected are they?  

Microsoft Academic Search

BACKGROUND: GenBank(R) is a public repository of all publicly available molecular sequence data from a range of sources. In addition to relevant metadata (e.g., sequence description, source organism and taxonomy), publication information is recorded in the GenBank data file. The identification of literature associated with a given molecular sequence may be an essential first step in developing research hypotheses. Although

Holly Miller; Catherine N Norton; Indra Neil Sarkar

2009-01-01

75

TREASURIES AND FUNDRAISING OF 4-H CLUBS AND 4-H AFFILIATED GROUPS NOTE: IN TRANSITION from NATIONAL 4-H GEN to RU 4-H GEN  

E-print Network

a charter and obtain federal tax exempt status. A "4-H entity" is defined as any 4-H club or group (advisory Club or group must apply for an EIN (Employee Identification Number) by completing an SS-4 form that the 4-H club be included under the RU 4-H GEN (federal tax exempt status). The 4-H club or group may

76

Motilibacter peucedani gen. nov., sp. nov., isolated from rhizosphere soil.  

PubMed

A novel actinomycete strain, designated RP-AC37(T), was isolated from rhizosphere soil collected on Mara Island of Jeju, Republic of Korea. Cells were aerobic, gram-positive, oxidase-negative, catalase-positive, non-mycelium-forming and motile rods (0.6-0.7×1.9-2.4 µm). Phylogenetic analysis based on 16S rRNA gene sequences showed that the organism formed a distinct clade within the radiation occupied by the suborder Frankineae. 16S rRNA gene similarity values were less than 93.2?% to members of the suborder Frankineae and related taxa. The diamino acid isomer in the cell-wall peptidoglycan was LL-diaminopimelic acid. The major whole-cell sugars were glucose, galactose and xylose. The major menaquinone was MK-9(H(4)). The polar lipids were diphosphatidylglycerol, phosphatidylcholine and phosphatidylinositol. The cellular fatty acids were straight-chain, unsaturated and saturated, with a significant amount of tuberculostearic acid (10-methyl-C(18?:?0)). The DNA G+C content was 73.2 mol%. The combination of morphological, chemotaxonomic and phylogenetic data clearly separate the isolate from members of known genera of the suborder Frankineae and related taxa, suggesting that the isolate represents a novel species in a new genus in this suborder, for which the name Motilibacter peucedani gen. nov., sp. nov. is proposed; the type strain is RP-AC37(T) (?=?KCTC 19630(T)?=?DSM 45328(T)). PMID:21421933

Lee, Soon Dong

2012-02-01

77

Amylibacter marinus gen. nov., sp. nov., isolated from surface seawater.  

PubMed

A Gram-stain-negative, non-motile, mesophilic, aerobic, rod-shaped bacterium, designated strain 2-3(T), was isolated from surface seawater at Muroto city, Kochi prefecture, Japan. This strain grew well with starch. Phylogenetic analyses based on 16S rRNA gene sequences showed that the strain fell within the family Rhodobacteraceae and that the strain was related most closely to the genus Pacificibacter (94.0?% sequence similarity to the type strain). The DNA G+C content was 52.4 mol%. The major fatty acids were C18?:?1?7c, C14?:?0 and C16?:?0. The major polar lipids were phosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine, one unidentified lipid, one unidentified aminolipid and one unidentified phospholipid. The major isoprenoid quinone was Q-10. Strain 2-3(T) did not grow at 4 or 35 °C, while the type strain of the type species of the genus Pacificibacter grows at both temperatures. From the taxonomic data obtained in this study, it is proposed that strain 2-3(T) be placed into a novel genus and species named Amylibacter marinus gen. nov., sp. nov. in the family Rhodobacteraceae. The type strain of Amylibacter marinus is 2-3(T) (?=?NBRC 110140(T)?=?LMG 28364(T)). PMID:25225261

Teramoto, Maki; Nishijima, Miyuki

2014-12-01

78

Correlation between ORange® (Gen 1, pseudophakic) intraoperative refraction and 1-week postcataract surgery autorefraction  

PubMed Central

Background: This study aimed to find the strength of the correlation between ORange® (intraoperative wavefront aberrometer) objective refraction during pseudophakic cataract surgery (Gen 1) and 1-week objective autorefraction postcataract surgery in order to establish the clinical degree of confidence in the ORange. Gen 1 was used because Gen 2 was not available at the time of the study. However, Gen 1 can still be a good reference. Methods: Thirty-two consecutive eyes were included in this prospective nonrandomized study. ORange was used after phacoemulsification and intraocular lens implantation. There were no complications and no withdrawals from the study. The refraction data from the ORange were recorded in spherical equivalents and put into Excel. One week postoperatively, autorefraction was done and the data were again recorded in spherical equivalents and put into Excel. Both sets of data were then transferred to SPSS for a correlation study. Because ORange is an objective refractor, it is necessary to use another objective refractor, such as the Zeiss Autorefractor, for comparison. Measurement at 1 week postoperatively is for cornea clearance for autorefraction and is the closest time to intraoperative assessment for comparison. Results: The Pearson correlation was r = +0.56, P < 0.01, which qualifies for a moderate or good correlation (0.5–0.75). Conclusion: Intraoperative refraction using the ORange Gen 1 after cataract surgery and intraocular lens implantation is moderate to good when correlated with objective autorefraction 1 week after cataract surgery. PMID:21383949

Chen, Ming

2011-01-01

79

Safety Sufficiency for NextGen: Assessment of Selected Existing Safety Methods, Tools, Processes, and Regulations  

NASA Technical Reports Server (NTRS)

NextGen is a complex socio-technical system and, in many ways, it is expected to be more complex than the current system. It is vital to assess the safety impact of the NextGen elements (technologies, systems, and procedures) in a rigorous and systematic way and to ensure that they do not compromise safety. In this study, the NextGen elements in the form of Operational Improvements (OIs), Enablers, Research Activities, Development Activities, and Policy Issues were identified. The overall hazard situation in NextGen was outlined; a high-level hazard analysis was conducted with respect to multiple elements in a representative NextGen OI known as OI-0349 (Automation Support for Separation Management); and the hazards resulting from the highly dynamic complexity involved in an OI-0349 scenario were illustrated. A selected but representative set of the existing safety methods, tools, processes, and regulations was then reviewed and analyzed regarding whether they are sufficient to assess safety in the elements of that OI and ensure that safety will not be compromised and whether they might incur intolerably high costs.

Xu, Xidong; Ulrey, Mike L.; Brown, John A.; Mast, James; Lapis, Mary B.

2013-01-01

80

Initial Investigation of Operational Concept Elements for NASA's NextGen-Airportal Project Research  

NASA Technical Reports Server (NTRS)

The NextGen-Airportal Project is organized into three research focus areas: Safe and Efficient Surface Operations, Coordinated Arrival/Departure Operations Management, and Airportal Transition and Integration Management. The content in this document was derived from an examination of constraints and problems at airports for accommodating future increases in air traffic, and from an examination of capabilities envisioned for NextGen. The concepts are organized around categories of constraints and problems and therefore do not precisely match, but generally reflect, the research focus areas. The concepts provide a framework for defining and coordinating research activities that are, and will be, conducted by the NextGen-Airportal Project. The concepts will help the research activities function as an integrated set focused on future needs for airport operations and will aid aligning the research activities with NextGen key capabilities. The concepts are presented as concept elements with more detailed sub-elements under each concept element. For each concept element, the following topics are discussed: constraints and problems being addressed, benefit descriptions, required technology and infrastructure, and an initial list of potential research topics. Concept content will be updated and more detail added as the research progresses. The concepts are focused on enhancing airportal capacity and efficiency in a timeframe 20 to 25 years in the future, which is similar to NextGen's timeframe.

Lohr, Gary; Lee, Jonathan; Poage, James L.; Tobias, Leonard

2009-01-01

81

Gen Ed Planning Sheet for Freshmen & Transfer Students Entering in Fall 2006 As part of Binghamton University's comprehensive General Education (Gen Ed) curriculum, all students must take courses in the  

E-print Network

University's comprehensive General Education (Gen Ed) curriculum, all students must take courses on Gen Ed is online at gened.binghamton.edu General Education Requirement Fulfilled By Aesthetics (A of four or more units of one high school foreign language with a course grade in the fourth year of 85

Suzuki, Masatsugu

82

Gen Ed Planning Sheet for Freshmen & Transfer Students Entering in Fall 2007 As part of Binghamton University's comprehensive General Education (Gen Ed) curriculum, all students must take courses in the  

E-print Network

University's comprehensive General Education (Gen Ed) curriculum, all students must take courses on Gen Ed is online at gened.binghamton.edu General Education Requirement Fulfilled By Aesthetics (A of four or more units of one high school foreign language with a course grade in the fourth year of 85

Suzuki, Masatsugu

83

Gen Ed Planning Sheet for Freshmen & Transfer Students Entering in Fall 2005 As part of Binghamton University's comprehensive General Education (Gen Ed) curriculum, all students must take courses in the following  

E-print Network

University's comprehensive General Education (Gen Ed) curriculum, all students must take courses on Gen Ed is online at gened.binghamton.edu General Education Requirement Fulfilled By Aesthetics (A of four or more units of one high school foreign language with a course grade in the fourth year of 85

Suzuki, Masatsugu

84

Gen Ed Planning Sheet for Freshmen & Transfer Students Entering in Fall 2004 As part of Binghamton University's comprehensive General Education (Gen Ed) curriculum, all students must take courses in the  

E-print Network

University's comprehensive General Education (Gen Ed) curriculum, all students must take courses on Gen Ed is online at gened.binghamton.edu General Education Requirement Fulfilled By Aesthetics (A of four or more units of one high school foreign language with a course grade in the fourth year of 85

Suzuki, Masatsugu

85

Complete cDNAs from Brachymyrmex patagonicus (Hymenoptera: Formicidae). --GenBank accession numbers: GU582126-GU582140.  

Technology Transfer Automated Retrieval System (TEKTRAN)

15 new gene sequences were identified from workers of Brachymyrmex patagonicus, and submitted to the National Center for Biotechnology Information GenBank. GenBank accession numbers are GU582126-GU582140. This information will provide scientists with genetic tools to study the development and the p...

86

RoboGen: Robot Generation through Artificial Evolution Joshua E. Auerbach, Deniz Aydin, Andrea Maesani, Przemyslaw M. Kornatowski,  

E-print Network

RoboGen: Robot Generation through Artificial Evolution Joshua E. Auerbach, Deniz Aydin, AndreaGen features an evo- lution engine complete with a physics simulator, as well as utilities both for generating- ponents: an evolution engine that generates and reproduces robots, and a simulator that renders

Floreano, Dario

87

arXiv:astroph/0106467 A critical appraisal of ATLAS9 and NextGen 5 model  

E-print Network

arXiv:astro­ph/0106467 v1 26 Jun 2001 A critical appraisal of ATLAS9 and NextGen 5 model relying on the Kurucz (1992) ATLAS9 and Hauschildt et al. (1999) NextGen5 synthesis models. The output: atmospheres, fundamental parameters As a major improvement over the standard ATLAS9 code for model atmospheres

Buzzoni, Alberto

88

77 FR 56839 - GenOn Marsh Landing, LLC; Supplemental Notice That Initial Market-Based Rate Filing Includes...  

Federal Register 2010, 2011, 2012, 2013, 2014

...Regulatory Commission [Docket No. ER12-2545-000] GenOn Marsh Landing, LLC; Supplemental Notice That Initial Market-Based...supplemental notice in the above-referenced proceeding, of GenOn Marsh Landing, LLC's application for market-based rate...

2012-09-14

89

Complete cDNAs from Solenopsis invicta (Hymenoptera: Formicidae). --GenBank accession numbers: HM130684-HM130685.  

Technology Transfer Automated Retrieval System (TEKTRAN)

2 new gene sequences were identified from workers of Solenopsis invicta, and submitted to the National Center for Biotechnology Information GenBank. GenBank accession numbers are HM130684-HM130685. This information will provide scientists with genetic tools to study the populations of this ant....

90

Complete cDNAs from Nylanderia sp. nr. pubens (Hymenoptera: Formicidae). GenBank GU980916-GU980928.  

Technology Transfer Automated Retrieval System (TEKTRAN)

13 new gene sequences were identified from workers of Rasberry crazy ant, Nylanderia sp.nr. pubens, and submitted to the National Center for Biotechnology Information GenBank. GenBank accession numbers are GU980916-GU980928. This information will provide scientists with genetic tools to study the p...

91

A Rapid Micro Polymerase Chain Reaction System (GenSpector Micro PCR) for Hepatitis B Virus DNA Detection  

E-print Network

A Rapid Micro Polymerase Chain Reaction System (GenSpector® Micro PCR) for Hepatitis B Virus DNA a rapid micro PCR (polymerase chain reaction) system (GenSpector® Micro PCR) for the application of Technology, PO Box 111, Suwon 440-600, Korea Abstract This paper presents a rapid micro PCR (polymerase chain

Oh, Kwang W.

92

Critical Issues on Materials for Gen-IV Reactors  

SciTech Connect

Within the LDRD on 'Critical Issues on Materials for Gen-IV Reactors' basic thermodynamics of the Fe-Cr alloy and accurate atomistic modeling were used to help develop the capability to predict hardening, swelling and embrittlement using the paradigm of Multiscale Materials Modeling. Approaches at atomistic and mesoscale levels were linked to build-up the first steps in an integrated modeling platform that seeks to relate in a near-term effort dislocation dynamics to polycrystal plasticity. The requirements originated in the reactor systems under consideration today for future sources of nuclear energy. These requirements are beyond the present day performance of nuclear materials and calls for the development of new, high temperature, radiation resistant materials. Fe-Cr alloys with 9-12% Cr content are the base matrix of advanced ferritic/martensitic (FM) steels envisaged as fuel cladding and structural components of Gen-IV reactors. Predictive tools are needed to calculate structural and mechanical properties of these steels. This project represents a contribution in that direction. The synergy between the continuous progress of parallel computing and the spectacular advances in the theoretical framework that describes materials have lead to a significant advance in our comprehension of materials properties and their mechanical behavior. We took this progress to our advantage and within this LDRD were able to provide a detailed physical understanding of iron-chromium alloys microstructural behavior. By combining ab-initio simulations, many-body interatomic potential development, and mesoscale dislocation dynamics we were able to describe their microstructure evolution. For the first time in the case of Fe-Cr alloys, atomistic and mesoscale were merged and the first steps taken towards incorporating ordering and precipitation effects into dislocation dynamics (DD) simulations. Molecular dynamics (MD) studies of the transport of self-interstitial, vacancy and point defect clusters in concentrated Fe-Cr alloys were performed for future diffusion data calculations. A recently developed parallel MC code with displacement allowed us to predict the evolution of the defect microstructures, local chemistry changes, grain boundary segregation and precipitation resulting from radiation enhanced diffusion. We showed that grain boundaries, dislocations and free surfaces are not preferential for alpha-prime precipitation, and explained experimental observations of short-range order (SRO) in Fe-rich FeCr alloys. Our atomistic studies of dislocation hardening allowed us to obtain dislocation mobility functions for BCC pure iron and Fe-Cr and determine for FCC metals the dislocation interaction with precipitates with a description to be used in Dislocation Dynamic (DD) codes. A Synchronous parallel Kinetic Monte Carlo code was developed and tested which promises to expand the range of applicability of kMC simulations. This LDRD furthered the limits of the available science on the thermodynamic and mechanic behavior of metallic alloys and extended the application of physically-based multiscale materials modeling to cases of severe temperature and neutron fluence conditions in advanced future nuclear reactors. The report is organized as follows: after a brief introduction, we present the research activities, and results obtained. We give recommendations on future LLNL activities that may contribute to the progress in this area, together with examples of possible research lines to be supported.

Caro, M; Marian, J; Martinez, E; Erhart, P

2009-02-27

93

Labedaea rhizosphaerae gen. nov., sp. nov., isolated from rhizosphere soil.  

PubMed

A novel actinomycete, designated strain RS-49(T), was isolated from the rhizosphere soil of a cliff-associated plant (Peucedanum japonicum Thunb.) in the Republic of Korea and subjected to a polyphasic taxonomic study. The results of comparative 16S rRNA gene sequence analyses showed that the organism belonged to the family Pseudonocardiaceae, suborder Pseudonocardineae and that it was most closely related to members of the genera Kibdelosporangium (96.6-97.0% sequence similarity), Actinokineospora (96.3-96.7%), Streptoalloteichus (96.2%) and Actinophytocola (96.2%). Substrate mycelia were well-developed and whitish or pale yellow to strong yellow. Aerial mycelia were branched and fragmented into rod-shaped elements. Single spherical spores were produced directly on the substrate mycelium. Sporangium-like structures and fragmentation of the substrate mycelium were absent. The diagnostic diamino acid in the cell-wall peptidoglycan was meso-diaminopimelic acid. The acyl type of the muramic acid residues in the peptidoglycan was N-acetylated. Whole-cell sugars were glucose, rhamnose, galactose, ribose, mannose, arabinose and xylose. The major menaquinone was MK-9(H(4)). Small amounts of MK-8 and MK-9(H(2)) were also detected. The polar lipids contained diphosphatidylglycerol, phosphatidyldimethylethanolamine, phosphatidylglycerol, phosphatidylinositol, an unknown phospholipid and an unknown lipid. The predominant fatty acids were iso-C(15:0) and iso-C(16:0). The DNA G+C content was 64.2 mol%. The phenotypic and phylogenetic characteristics show that strain RS-49(T) can be differentiated from members of all genera in the suborder Pseudonocardineae and thus represents a novel species in a new genus for which the name Labedaea rhizosphaerae gen. nov., sp. nov. is proposed; the type strain of the type species is RS-49(T) (?=?KCTC 19662(T)?=?DSM 45361(T)). PMID:21948095

Lee, Soon Dong

2012-08-01

94

Rudaibacter terrae gen. nov., sp. nov., isolated from greenhouse soil.  

PubMed

A novel Gram-stain-positive, non-motile, rod-shaped bacterium, designated 5GHs34-4(T), was isolated from greenhouse soil in Yongin, Republic of Korea. Growth occurred in the temperature range of 10-37 °C (optimum 28-30 °C) and at pH 5.0-9.0 (optimum pH 7.0). It can tolerate up to 3?% (w/v) NaCl. The strain showed 16S rRNA gene sequence similarity levels of 95.1-97.0?% with species of the genus Leifsonia, 95.7-96.7?% with species of the genus Herbiconiux, 95.1-96.4?% with species of the genus Salinibacterium and 96.1?% with Labedella gwakjiensis and Homoserinimonas aerilata. The highest sequence similarities (97.0?%) were with Leifsonia aquatica JCM 1368(T), Leifsonia poae VKM Ac-1401(T) and Leifsonia psychrotolerans LI1(T). The peptidoglycan type determined for strain 5GHs34-4(T) was B2? with dl-2,4-diaminobutyric acid at position 3. The murein was of the acetyl type. The polar lipids consisted of diphosphatidylglycerol, phosphatidylglycerol and two unknown glycolipids. The menaquinones detected were MK-13, MK-12 and MK-14, and the major fatty acids were summed feature 8 (C18?:?1?7c and/or C18?:?1?6c), anteiso-C17?:?0 and anteiso-C15?:?0. The phenotypic and phylogenetic traits of strain 5GHs34-4(T) differed in some respects from those of members of the family Microbacteriaceae. Therefore, strain 5GHs34-4(T) is considered to represent a novel species of a new genus in the family Microbacteriaceae, for which the name Rudaibacter terrae gen. nov., sp. nov. is proposed. The type strain is 5GHs34-4(T) (?=?KACC 15523(T)?=?NBRC 108754(T)). PMID:23728372

Kim, Soo-Jin; Moon, Ji-Young; Hamada, Moriyuki; Tamura, Tomohiko; Weon, Hang-Yeon; Suzuki, Ken-ichiro; Kwon, Soon-Wo

2013-11-01

95

Scopulibacillus darangshiensis gen. nov., sp. nov., isolated from rock.  

PubMed

A novel, Gram-positive bacterium, designated DLS-06(T), was isolated from scoria (volcanic ash) under rock on the peak of small mountain (300 m above the sea level; known as Darangshi Oreum) in Jeju, Republic of Korea. The cells of the isolate were aerobic, oxidase-negative, catalase-positive, endospore-forming, non-motile rods. The organism grew at 25 approximately 30 degrees C and initial pH 6.1 approximately 9.1. A neighbour-joining tree based on 16S rRNA gene sequences showed that the organism was related to members of the family "Sporolactobacillaceae" and related taxa. The phylogenetic neighbours were Pullulanibacillus naganoensis (95.2% 16S rRNA gene sequence similarity), Tuberibacillus calidus (95.0%) and Sporolactobacillus (91.8 approximately 94.2%). Levels of 16S rRNA gene sequence similarity of the isolate to representatives of other genera were in the range of 87.2 approximately 93.7%. The organism contained meso-diaminopimelic acid as the diagnostic diamino acid in the cell-wall peptidoglycan. The predominant menaquinone was MK-7. The polar lipid profile contained diphosphatidylglycerol, phosphatidylglycerol, an unknown ninhydrin-positive phospholipid, three unknown phospholipids and an unknown lipid. The major fatty acids were anteiso-C(15:0) and anteiso-C(17:0). The G+C content of the DNA was 50.8 mol%. On the basis of the phenotypic and phylogenetic data presented in this study, this organism represents a novel genus and species in the order Bacillales, for which the name Scopulibacillus darangshiensis gen. nov., sp. nov. is proposed. The type strain is DLS-06(T) (=DSM 19377(T) =KCTC 13161(T)). PMID:20127464

Lee, Soon Dong; Lee, Dong Wan

2009-12-01

96

Nibribacter koreensis gen. nov., sp. nov., isolated from estuarine water.  

PubMed

A Gram-reaction-negative, rod-shaped, non-motile, red-pigmented bacterium, designated strain GSR3061(T), was isolated from a water sample of the Mangyung estuary enclosed by the Saemangeum Embankment in JEOLlabuk-do of South Korea, and characterized using a polyphasic approach. 16S rRNA gene sequence analysis of strain GSR3061(T) indicated that the isolate belonged to the phylum Bacteroidetes and exhibited similarity levels of 94.7?% to Rufibacter tibetensis NRRL B-51285(T), 92.4?% to Adhaeribacter terreus KACC 14257(T) and 91.9?% to Pontibacter korlensis KACC 15371(T). Growth was observed at 15-40 °C and pH 6.5-9.5. The major cellular fatty acids of the novel strain were summed feature 4 (comprising iso-C17?:?1 I and/or anteiso-C17?:?1 B), iso-C15?:?0, C17?:?1?6c and iso-C16?:?1 H. Flexirubin-type pigments were absent. The DNA G+C content of strain GSR3061(T) was 44.9 mol% and the major quinone was MK-7. The polar lipid profile consisted mainly of phosphatidylethanolamine; three unidentified lipids, two unknown aminolipids, two unknown phospholipids, an unknown aminophospholipid and an unknown glycolipid were also present. On the basis of the evidence presented, it is concluded that strain GSR3061(T) represents a novel species of a new genus, for which the name Nibribacter koreensis gen. nov., sp. nov. is proposed. The type strain of Nibribacter koreensis is GSR3061(T) (?=?KACC 16450(T)?=?JCM 17917(T)). PMID:23934250

Kang, Ji Young; Chun, Jeesun; Jahng, Kwang Yeop

2013-12-01

97

Motiliproteus sediminis gen. nov., sp. nov., isolated from coastal sediment.  

PubMed

A novel Gram-stain-negative, rod-to-spiral-shaped, oxidase- and catalase- positive and facultatively aerobic bacterium, designated HS6(T), was isolated from marine sediment of Yellow Sea, China. It can reduce nitrate to nitrite and grow well in marine broth 2216 (MB, Hope Biol-Technology Co., Ltd) with an optimal temperature for growth of 30-33 °C (range 12-45 °C) and in the presence of 2-3% (w/v) NaCl (range 0.5-7%, w/v). The pH range for growth was pH 6.2-9.0, with an optimum at 6.5-7.0. Phylogenetic analysis based on 16S rRNA gene sequences demonstrated that the novel isolate was 93.3% similar to the type strain of Neptunomonas antarctica, 93.2% to Neptunomonas japonicum and 93.1% to Marinobacterium rhizophilum, the closest cultivated relatives. The polar lipid profile of the novel strain consisted of phosphatidylethanolamine, phosphatidylglycerol and some other unknown lipids. Major cellular fatty acids were summed feature 3 (C(16:1) ?7c/iso-C15:0 2-OH), C(18:1) ?7c and C(16:0) and the main respiratory quinone was Q-8. The DNA G+C content of strain HS6(T) was 61.2 mol%. Based on the phylogenetic, physiological and biochemical characteristics, strain HS6(T) represents a novel genus and species and the name Motiliproteus sediminis gen. nov., sp. nov., is proposed. The type strain is HS6(T) (=ATCC BAA-2613(T)=CICC 10858(T)). PMID:25038887

Wang, Zong-Jie; Xie, Zhi-Hong; Wang, Chao; Du, Zong-Jun; Chen, Guan-Jun

2014-10-01

98

Falsochrobactrum ovis gen. nov., sp. nov., isolated from a sheep.  

PubMed

A Gram-stain-negative, rod-shaped, oxidase-positive, non-spore-forming, non-motile bacterium (B1315(T)) was isolated from the placenta of a sheep with abortion. On the basis of 16S rRNA gene sequence analyses the strain was assigned to the Brucella-Ochrobactrum-Paenochrobactrum-Pseudochrobactrum group with 94.5-94.8?%, 94.3-96.1?%, 95.0-95.1?%, and 95.9-96.1?% sequence similarities to type strains of species of the four genera, respectively. Phylogenetic trees indicated a close relationship to the type strains of Ochrobactrum gallinifaecis and Ochrobactrum oryzae (95.9 and 96.1?% sequence similarity, respectively). Chemotaxonomic data confirmed the allocation of strain B1315(T) to the family Brucellaceae (quinone system: ubiquinone Q-10 and major fatty acids: C18?:?1?7c and C19?:?0 cyclo ?8c). The polar lipid profile contained the major lipids diphosphatidylglycerol, phosphatidylmonomethylethanolamine, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylcholine and the unidentified but unique phospholipid PL7. The polyamine pattern of strain B1315(T) contained the major polyamines spermidine and putrescine. On the basis of the 16S rRNA gene and recA sequence phylogeny and chemotaxonomic data strain B1315(T) was clearly different from the genera Brucella, Ochrobactrum, Paenochrobactrum and Pseudochrobactrum. On the basis of these data we propose the novel genus Falsochrobactrum gen. nov. with the type species Falsochrobactrum ovis sp. nov. with the type strain B1315(T) (?=?CCM 8460(T)?=?LMG 27356(T.)) The taxonomic allocation of O. gallinifaecis, which grouped inconsistently together with strain B1315(T) on the basis of 16S rRNA gene sequence data, but shows the chemotaxonomic features of the genus Ochrobactrum, remains to be clarified. PMID:23687057

Kämpfer, Peter; Glaeser, Stefanie; Busse, Hans-Jürgen; Eisenberg, Tobias; Scholz, Holger

2013-10-01

99

http://www.u-tokyo.ac.jp/fin03/pdf/H21.1.26torihiki.pdf http://www.u-tokyo.ac.jp/gen01/reiki_int/reiki_kaikei/zaimukaikeiininkitei.pdf  

E-print Network

.pdf http://www.u-tokyo.ac.jp/gen01/reiki_int/reiki_kaikei/zaimukaikeiininkitei.pdf http://www.u-tokyo.ac.jp/gen01/reiki_int/reiki_kaikei/keiyakujimutoriatukaikite.pdf http://www.u-tokyo.ac.jp/gen01/reiki_int/reiki; 2 3 http://www.u-tokyo.ac.jp/gen01/reiki_int/reiki

Miyashita, Yasushi

100

NextGen Operations in a Simulated NY Area Airspace  

NASA Technical Reports Server (NTRS)

A human-in-the-loop simulation conducted in the Airspace Operations Laboratory (AOL) at NASA Ames Research Center explored the feasibility of a Next Generation Air Transportation System (NextGen) solution to address airspace and airport capacity limitations in and around the New York metropolitan area. A week-long study explored the feasibility of a new Optimal Profile Descent (OPD) arrival into the airspace as well as a novel application of a Terminal Area Precision Scheduling and Spacing (TAPSS) enhancement to the Traffic Management Advisor (TMA) arrival scheduling tool to coordinate high volume arrival traffic to intersecting runways. In the simulation, four en route sector controllers and four terminal radar approach control (TRACON) controllers managed traffic inbound to Newark International Airport's primary runway, 22L, and its intersecting overflow runway, 11. TAPSS was used to generate independent arrival schedules for each runway and a traffic management coordinator participant adjusted the arrival schedule for each runway 11 aircraft to follow one of the 22L aircraft. TAPSS also provided controller-managed spacing tools (slot markers with speed advisories and timelines) to assist the TRACON controllers in managing the arrivals that were descending on OPDs. Results showed that the tools significantly decreased the occurrence of runway violations (potential go-arounds) when compared with a Baseline condition with no tools. Further, the combined use of the tools with the new OPD produced a peak arrival rate of over 65 aircraft per hour using instrument flight rules (IFR), exceeding the current maximum arrival rate at Newark Liberty International Airport (EWR) of 52 per hour under visual flight rules (VFR). Although the participants rated the workload as relatively low and acceptable both with and without the tools, they rated the tools as reducing their workload further. Safety and coordination were rated by most participants as acceptable in both conditions, although the TRACON Runway Coordinator (TRC) rated neither as acceptable in the Baseline condition. Regarding the role of the TRC, the two TRACON controllers handling the 11 arrivals indicated that the TRC was very much needed in the Baseline condition without tools, but not needed in the condition with tools. This indicates that the tools were providing much of the sequencing and spacing information that the TRC had supplied in the Baseline condition.

Smith, Nancy M.; Parke, Bonny; Lee, Paul; Homola, Jeff; Brasil, Connie; Buckley, Nathan; Cabrall, Chris; Chevalley, Eric; Lin, Cindy; Morey, Susan; Omar, Faisal; Rein-Weston, Daphne; Yoo, Hyo-Sang

2013-01-01

101

GenMin: An enhanced genetic algorithm for global optimization  

NASA Astrophysics Data System (ADS)

A new method that employs grammatical evolution and a stopping rule for finding the global minimum of a continuous multidimensional, multimodal function is considered. The genetic algorithm used is a hybrid genetic algorithm in conjunction with a local search procedure. We list results from numerical experiments with a series of test functions and we compare with other established global optimization methods. The accompanying software accepts objective functions coded either in Fortran 77 or in C++. Program summaryProgram title: GenMin Catalogue identifier: AEAR_v1_0 Program summary URL:http://cpc.cs.qub.ac.uk/summaries/AEAR_v1_0.html Program obtainable from: CPC Program Library, Queen's University, Belfast, N. Ireland Licensing provisions: Standard CPC licence, http://cpc.cs.qub.ac.uk/licence/licence.html No. of lines in distributed program, including test data, etc.: 35 810 No. of bytes in distributed program, including test data, etc.: 436 613 Distribution format: tar.gz Programming language: GNU-C++, GNU-C, GNU Fortran 77 Computer: The tool is designed to be portable in all systems running the GNU C++ compiler Operating system: The tool is designed to be portable in all systems running the GNU C++ compiler RAM: 200 KB Word size: 32 bits Classification: 4.9 Nature of problem: A multitude of problems in science and engineering are often reduced to minimizing a function of many variables. There are instances that a local optimum does not correspond to the desired physical solution and hence the search for a better solution is required. Local optimization techniques are frequently trapped in local minima. Global optimization is hence the appropriate tool. For example, solving a nonlinear system of equations via optimization, employing a least squares type of objective, one may encounter many local minima that do not correspond to solutions (i.e. they are far from zero). Solution method: Grammatical evolution and a stopping rule. Running time: Depending on the objective function. The test example given takes only a few seconds to run.

Tsoulos, Ioannis G.; Lagaris, I. E.

2008-06-01

102

CottonGen: a genomics, genetics and breeding database for cotton research  

PubMed Central

CottonGen (http://www.cottongen.org) is a curated and integrated web-based relational database providing access to publicly available genomic, genetic and breeding data for cotton. CottonGen supercedes CottonDB and the Cotton Marker Database, with enhanced tools for easier data sharing, mining, visualization and data retrieval of cotton research data. CottonGen contains annotated whole genome sequences, unigenes from expressed sequence tags (ESTs), markers, trait loci, genetic maps, genes, taxonomy, germplasm, publications and communication resources for the cotton community. Annotated whole genome sequences of Gossypium raimondii are available with aligned genetic markers and transcripts. These whole genome data can be accessed through genome pages, search tools and GBrowse, a popular genome browser. Most of the published cotton genetic maps can be viewed and compared using CMap, a comparative map viewer, and are searchable via map search tools. Search tools also exist for markers, quantitative trait loci (QTLs), germplasm, publications and trait evaluation data. CottonGen also provides online analysis tools such as NCBI BLAST and Batch BLAST. PMID:24203703

Yu, Jing; Jung, Sook; Cheng, Chun-Huai; Ficklin, Stephen P.; Lee, Taein; Zheng, Ping; Jones, Don; Percy, Richard G.; Main, Dorrie

2014-01-01

103

Nubenocephalus nebraskensis n. gen., n. sp. (Apicomplexa: Actinocephalidae) from Adults of Argia bipunctulata (Odonata: Zygoptera)  

Microsoft Academic Search

Nubenocephalus nebraskensis n. gen., n. sp. (Apicomplexa: Actinocephalidae) is described from trophozoites, sporonts, gamonts, and oocysts collected from adult Argia bipunctulata (Odonata: Zygoptera). The new genus is distinguished from existing acanthosporine genera by elongate dodecahedral oocysts, without equatorial faces, that are hexagonal in equatorial cross section with equatorial and terminal spines. The epimerite is very broadly ovoid and truncated posteriorly

Richard E. Clopton; Tamara J. Percival Cook; Janovy John J. Jr

1993-01-01

104

Xylochloris irregularis gen. et sp. nov. (Trebouxiophyceae, Chlorophyta), a novel subaerial coccoid green alga  

E-print Network

green alga JIR I´ NEUSTUPA 1 *, MAREK ELIA´ S1 , PAVEL SKALOUD 1 , YVONNE NE MCOVA´ 1 AND LENKA irregularis gen. et sp. nov. (Trebouxiophyceae, Chlorophyta), a novel subaerial coccoid green alga. Phycologia 50: 57­66. DOI: 10.2216/08-64.1 The phylogenetic diversity of subaerial coccoid green algae remains

105

Wuyunanthus gen. nova flower of Celastraceae from the Palaeocene of north-east China  

Microsoft Academic Search

A flower assigned to Wuyunanthus hexapetalus gen. &sp. nov. has been collected from the Wuyun Formation of Palaeocene age, Jiayin County, Heilongjiang Province, north-east China. The flower is bisexual, actinomorphic, and 6-merous. There are six free valvate petals in a whorl inserted on the margin of a hexagonal disk, and six free stamens alternate with petals within it. The pistil

YU-FEI WANG; CHENG-SEN LI FLS; ZHEN-YU LI; DE-ZHI FU

2001-01-01

106

Validation of the multiplex kit genRES MPX2 for forensic casework analysis  

Microsoft Academic Search

Validation studies were carried out using the commercially available PCR multiplex system genRESMPX-2. In addition to amelogenin, this system comprises the complete set of eight STR systems which are components of the German DNA database established in 1998 by the Federal Criminal Office of Germany (BKA). The minimum amount of template DNA which gave a complete DNA pattern ranged between

A. Junge; T. Lederer; G. Braunschweiger; B. Madea

2003-01-01

107

USDA Forest Service Gen. Tech. Rep. PSW-GTR-193. 2004. vii Acknowledgments  

E-print Network

USDA Forest Service Gen. Tech. Rep. PSW-GTR-193. 2004. vii Acknowledgments An event like the Sierra of the Pacific Southwest Research Station, USDA Forest Service, and Jim Quinn from the Department, University of California at Berkeley · Carl Skinner; Pacific Southwest Research Station, USDA Forest Service

Standiford, Richard B.

108

NASA/CR2012-217553 Safety Assurance in NextGen  

E-print Network

March 2012 NASA/CR­2012-217553 Safety Assurance in NextGen Cody Harrison Fleming, Melissa Spencer Aerospace Advanced Technology, Columbia, Maryland #12;NASA STI Program . . . in Profile Since its founding, NASA has been dedicated to the advancement of aeronautics and space science. The NASA scientific

Leveson, Nancy

109

USDA Forest Service Gen. Tech. Rep. PSW-GTR-181. 2002. 863 British Columbia's Dangerous Tree  

E-print Network

-GTR-181. 2002.864 in occupational health and safety, logging, forest pathology, and forest and wildlifeUSDA Forest Service Gen. Tech. Rep. PSW-GTR-181. 2002. 863 British Columbia's Dangerous Tree or dying tree over 3 meters in height." New Workers' Compensation Board Occupational Health and Safety

Standiford, Richard B.

110

The ChromaGen contact lens system: colour vision test results and subjective responses.  

PubMed

The ChromaGen lens system is designed to enhance colour perception in colour vision deficiency (CVD). To investigate its efficacy, 14 CVD subjects were prescribed ChromaGen contact lenses. Colour vision tests (Ishihara, Farnsworth Munsell D-15, Farnsworth Lantern) were administered at baseline, lens dispensing, and after a 2-week lens-wearing trial during which subjective responses were recorded daily using visual analogue scales. ChromaGen lenses significantly reduced ishihara error rates (p < 0.001; ANOVA), particularly for deutan subjects. There was also a significant reduction in errors (p < 0.005) on the D-15 test. Conversely, lens wear had no significant effect on Farnsworth Lantern test performance. Subjectively, subjects reported enhanced colour perception, but poor vision in dim light. Judgement of distance and motion were only slightly affected. We conclude that ChromaGen lenses may enhance subjective colour experience and assist in certain colour-related tasks, but are not indicated as an aid for CVD in occupations with colour vision-related restrictions. PMID:11396392

Swarbrick, H A; Nguyen, P; Nguyen, T; Pham, P

2001-05-01

111

Overview of NASA's Next Generation Air Transportation System (NextGen) Research  

NASA Technical Reports Server (NTRS)

This slide presentation is an overview of the research for the Next Generation Air Transportation System (NextGen). Included is a review of the current air transportation system and the challenges of air transportation research. Also included is a review of the current research highlights and significant accomplishments.

Swenson, Harry N.

2009-01-01

112

KORA-gen - Resource for Population Genetics, Controls and a Broad Spectrum of Disease Phenotypes  

Microsoft Academic Search

KORA-gen is a resource for genetic epidemiological research, based on the KORA platform (Cooperative Health Research in the Region of Augsburg). Biosamples and phenotypic character- istics as well as environmental parameters of 18,000 adults from Augsburg and the surrounding counties are available. The age range of the participants was 25 to 74 years of recruitment and is 30 to 90

H.-E. Wichmann; C. Gieger; T. Illig

2005-01-01

113

Febraury 2011 EA Report Brown Bagger 1 When Gen X is in Charge  

E-print Network

Gen-Xers and younger **Millennial workers, they'll also be leading older workers who are still in the workplace. It's a leadership transi- tion the likes of which corporate America has never seen. (*Generation Boomers generally implies those born between 1946 and 1964. **Millennials, also known as Generation Y

Oliver, Douglas L.

114

Cryptometrion aestuescens gen. sp. nov. (Cryphonectriaceae) pathogenic to Eucalyptus in Indonesia  

E-print Network

Cryptometrion aestuescens gen. sp. nov. (Cryphonectriaceae) pathogenic to Eucalyptus in Indonesia M, Indonesia. C Corresponding author. Email: Marieka.Gryzenhout@fabi.up.ac.za Abstract. The recently described on Eucalyptus. A recent investigation of dying Eucalyptus grandis clonal hedges in northern Sumatra, Indonesia

115

USDA Forest Service Gen. Tech. Rep. RMRS-GTR-42-vol. 6. 2008 61 Introduction ____________________  

E-print Network

bioregionwashistoricallyclosed-canopyconiferousand deciduous forest. Coniferous forests are characterized by spruce (Picea spp, P. resinosa, P. rigida, P. banksi- ana)inthenortheasterncoastalandGreatLakesareas. Deciduous forestsUSDA Forest Service Gen. Tech. Rep. RMRS-GTR-42-vol. 6. 2008 61 Introduction

116

Plant MetGenMAP: an integrative analysis system for plant systems biology  

Technology Transfer Automated Retrieval System (TEKTRAN)

We have developed a web-based system, Plant MetGenMAP, which can identify significantly altered biochemical pathways and highly affected biological processes, predict functional roles of pathway genes, and potential pathway-related regulatory motifs from transcript and metabolite profile datasets. P...

117

Thaumamermis cosgrovei n. gen., n. sp. (Mermithidae: Nematoda) parasitizing terrestrial isopods (Isopoda: Oniscoidea)  

Microsoft Academic Search

Summary  A new mermithid nematode, Thaumamermis cosgrovei n. gen., n. sp. (Mermithidae: Nematoda) was found parasitizing two terrestrial isopods (Isopoda: Oniscoidea) in California. The hosts, Armadillidium vulgare (Latr.) (a pillbug) and Porcellio scaber (Latr.) (a sowbug) represent the first cases of isopods attacked by mermithid nematodes. The genus Thaumamermis can be distinguished from all previously described mermithids by the extremely dimorphic

George O. Poinar

1981-01-01

118

Acantholachesilla gen. n. (Psocodea:'Psocoptera': Lachesillidae: Eolachesillinae: Graphocaeciliini) from Valle del Cauca, Colombia.  

PubMed

Acantholachesilla saltoensis gen. et sp. n. is described from Valle del Cauca, Colombia, in the Lachesillidae, tribe Graphocaeciliini (Eolachesillinae). The genus is related to Dagualachesilla and Dagualachesilloides that occur in the same area, differing from them in the male clunial projection, phallosome, and female subgenital plate and gonapophyses. PMID:24989767

Aldrete, Alfonso N García; Manchola, Oscar Fernando Saenz; Obando, Ranulfo González

2014-01-01

119

GWAS in a box: statistical and visual analytics of structured associations via GenAMap.  

PubMed

With the continuous improvement in genotyping and molecular phenotyping technology and the decreasing typing cost, it is expected that in a few years, more and more clinical studies of complex diseases will recruit thousands of individuals for pan-omic genetic association analyses. Hence, there is a great need for algorithms and software tools that could scale up to the whole omic level, integrate different omic data, leverage rich structure information, and be easily accessible to non-technical users. We present GenAMap, an interactive analytics software platform that 1) automates the execution of principled machine learning methods that detect genome- and phenome-wide associations among genotypes, gene expression data, and clinical or other macroscopic traits, and 2) provides new visualization tools specifically designed to aid in the exploration of association mapping results. Algorithmically, GenAMap is based on a new paradigm for GWAS and PheWAS analysis, termed structured association mapping, which leverages various structures in the omic data. We demonstrate the function of GenAMap via a case study of the Brem and Kruglyak yeast dataset, and then apply it on a comprehensive eQTL analysis of the NIH heterogeneous stock mice dataset and report some interesting findings. GenAMap is available from http://sailing.cs.cmu.edu/genamap. PMID:24905018

Xing, Eric P; Curtis, Ross E; Schoenherr, Georg; Lee, Seunghak; Yin, Junming; Puniyani, Kriti; Wu, Wei; Kinnaird, Peter

2014-01-01

120

78 FR 5860 - Eighth Meeting: RTCA Next Gen Advisory Committee (NAC)  

Federal Register 2010, 2011, 2012, 2013, 2014

...data sources to track and analyze the impacts of NextGen. Cat Ex 2 Task Group [cir] Preliminary report on the recommendation...approval of the chairman, members of the public may present oral statements at the meeting. Persons wishing to present...

2013-01-28

121

TheJournalofGeneralPhysiology J. Gen. Physiol. The Rockefeller University Press $30.00  

E-print Network

TheJournalofGeneralPhysiology J. Gen. Physiol. © The Rockefeller University Press $30.00 Volume 131 of Passive Permeability through Lipid Bilayers John F. Nagle,1,3 John C. Mathai,2 Mark L. Zeidel,2 in the accompanying paper. I N T R O D U C T I O N A highly favored theory of passive permeability through lipid

Nagle, John F.

122

TheJournalofGeneralPhysiology J. Gen. Physiol. The Rockefeller University Press $30.00  

E-print Network

TheJournalofGeneralPhysiology J. Gen. Physiol. © The Rockefeller University Press $30.00 Cite Alla D. Lyfenko,1 Andrew Rosenfeld,1 Isabelle Marty,3 Angela F. Dulhunty,2 and Robert T. Dirksen1 1 of Molecular Bioscience, John Curtin School of Medical Research, Australian National University, P.O. Box 334

Paris-Sud XI, Université de

123

TheJournalofGeneralPhysiology J. Gen. Physiol. The Rockefeller University Press $30.00  

E-print Network

TheJournalofGeneralPhysiology J. Gen. Physiol. © The Rockefeller University Press $30.00 Volume 131 Determinants of Water Permeability through the Lipid Membrane John C. Mathai,1 Stephanie Tristram-Nagle,2 John N T R O D U C T I O N Water and solute permeability across lipid membranes have been extensively

Nagle, John F.

124

The Rockefeller University Press J. Gen. Physiol. Vol. 137 No. 3 331333  

E-print Network

Correspondence to John D. Lueck: john-lueck@uiowa.edu membrane compartments. For the images shown in Fig. 1 (AThe Rockefeller University Press J. Gen. Physiol. Vol. 137 No. 3 331­333 www.jgp.org/cgi/doi/10 cell patch clamp experiments after formamide-induced osmotic shock (Figs. 4 B and 6 D). Lamb et al

Campbell, Kevin P.

125

GenI: Natural language generation in Haskell INRIA/LORIA/UHP  

E-print Network

, Monads, Profiling. 1. Natural Language Generation Natural Language Processing (NLP) is the field that deals with the automatic processing of natural, human, languages like English, French, Spanish, etcGenI: Natural language generation in Haskell Eric Kow INRIA/LORIA/UHP eric.kow@loria.fr Abstract

Paris-Sud XI, Université de

126

Increasing airport arrival capacity in NextGen with wake turbulence avoidance  

Microsoft Academic Search

Arrival capacity at major airports is a primary constraint that must be overcome to reach the Next Generation Air Transportation System (NextGen) capacity goals. At the nation's busiest airports with closely spaced parallel runways for arrivals, capacity can be reduced significantly when weather at these airports falls below visual approach minima. When visual approaches can be used for arriving aircraft,

Laurence Audenaerd; D. Domino; S. Lang; C. Lunsford; A. P. Smith; J. Tittsworth

2009-01-01

127

275USDA Forest Service Gen. Tech. Rep. PSW-GTR-160. 1997. Restoration Management of Northern  

E-print Network

techniques involved in the restoration plan include prescribed burning, manual removal of Douglas275USDA Forest Service Gen. Tech. Rep. PSW-GTR-160. 1997. Restoration Management of Northern Oak, northern oak woodland, mixed evergreen forest and coniferous forest community types (Amme 1987

Standiford, Richard B.

128

Mining metadata from unidentified ITS sequences in GenBank: A case study in Inocybe (Basidiomycota)  

Microsoft Academic Search

BACKGROUND: The lack of reference sequences from well-identified mycorrhizal fungi often poses a challenge to the inference of taxonomic affiliation of sequences from environmental samples, and many environmental sequences are thus left unidentified. Such unidentified sequences belonging to the widely distributed ectomycorrhizal fungal genus Inocybe (Basidiomycota) were retrieved from GenBank and divided into species that were identified in a phylogenetic

Martin Ryberg; R Henrik Nilsson; Erik Kristiansson; Mats Töpel; Stig Jacobsson; Ellen Larsson

2008-01-01

129

A Possible Genome To Architecture Project (GenToA) [The Meta-Genome Project?  

E-print Network

concern about the Human Genome project, comparing it with buying a book written in a language nobodyA Possible Genome To Architecture Project (GenToA) [The Meta-Genome Project?] Installed: 2 Aug 2010 can a genome specify an information-processing architecture that grows itself guided by interaction

Sloman, Aaron

130

WWith new research predicting a signifi-cant chance of a massive, tsunami-gen-  

E-print Network

WWith new research predicting a signifi- cant chance of a massive, tsunami-gen- erating earthquake, taking the message of tsunami and earthquake prepared- ness to community meetings and work- shops up of the fault. Given that the last tsunami-generating quake to hit the Oregon coast occurred in 1700, we

Tullos, Desiree

131

Data Form Number and Name Responsible Office(s) CIHE Data Form Gen  

E-print Network

N E A S C D A T A F O R M S #12;Data Form Number and Name Responsible Office(s) CIHE Data Form Gen: General Information Form President's Office CIHE Data Form 1: Statement of Financial Position Executive Vice President CIHE Data Form 2-1: Statement of Unrestricted Revenues and Expenses Executive Vice

Snider, Barry B.

132

SIMILASCAROPHIS N. GEN. N. SPP. (NEMATODA: CYSTIDICOLIDAE) PARASITIZING MARINE FISHES OFF THE CHILEAN COAST  

Microsoft Academic Search

Similascarophis (Cystidicolidae) n. gen. is proposed. In the mouth of specimens of this genus, submedial labia are absent and pseudolabia do not have any part projecting toward the central oral opening. These nematodes were obtained from the alimentary tract of 7 marine fish species along the coast of Chile: Bovichthys chilensis Regan, Eleginops maclovinus(Cuvier), Pinguipes chilensis (Valenciennes), Cilus gilberti (Abbott),

Gabriela Muñoz; María Teresa González; Mario George-Nascimento

2004-01-01

133

55USDA Forest Service Gen. Tech. Rep. PSW-GTR-160. 1997. Oak Research Needs1  

E-print Network

55USDA Forest Service Gen. Tech. Rep. PSW-GTR-160. 1997. Oak Research Needs1 Enoch F. Bell2 If you," but perhaps you have not heard about the oak tree that "wood knot," slight pun intended. It would oaks and oak woodlands. I will divide my brief remarks into biological and social aspects. Biological

Standiford, Richard B.

134

GWAS in a Box: Statistical and Visual Analytics of Structured Associations via GenAMap  

PubMed Central

With the continuous improvement in genotyping and molecular phenotyping technology and the decreasing typing cost, it is expected that in a few years, more and more clinical studies of complex diseases will recruit thousands of individuals for pan-omic genetic association analyses. Hence, there is a great need for algorithms and software tools that could scale up to the whole omic level, integrate different omic data, leverage rich structure information, and be easily accessible to non-technical users. We present GenAMap, an interactive analytics software platform that 1) automates the execution of principled machine learning methods that detect genome- and phenome-wide associations among genotypes, gene expression data, and clinical or other macroscopic traits, and 2) provides new visualization tools specifically designed to aid in the exploration of association mapping results. Algorithmically, GenAMap is based on a new paradigm for GWAS and PheWAS analysis, termed structured association mapping, which leverages various structures in the omic data. We demonstrate the function of GenAMap via a case study of the Brem and Kruglyak yeast dataset, and then apply it on a comprehensive eQTL analysis of the NIH heterogeneous stock mice dataset and report some interesting findings. GenAMap is available from http://sailing.cs.cmu.edu/genamap. PMID:24905018

Xing, Eric P.; Curtis, Ross E.; Schoenherr, Georg; Lee, Seunghak; Yin, Junming; Puniyani, Kriti; Wu, Wei; Kinnaird, Peter

2014-01-01

135

GenGIS 2: Geospatial Analysis of Traditional and Genetic Biodiversity, with New Gradient Algorithms and an Extensible Plugin Framework  

PubMed Central

GenGIS is free and open source software designed to integrate biodiversity data with a digital map and information about geography and habitat. While originally developed with microbial community analyses and phylogeography in mind, GenGIS has been applied to a wide range of datasets. A key feature of GenGIS is the ability to test geographic axes that can correspond to routes of migration or gradients that influence community similarity. Here we introduce GenGIS version 2, which extends the linear gradient tests introduced in the first version to allow comprehensive testing of all possible linear geographic axes. GenGIS v2 also includes a new plugin framework that supports the development and use of graphically driven analysis packages: initial plugins include implementations of linear regression and the Mantel test, calculations of alpha-diversity (e.g., Shannon Index) for all samples, and geographic visualizations of dissimilarity matrices. We have also implemented a recently published method for biomonitoring reference condition analysis (RCA), which compares observed species richness and diversity to predicted values to determine whether a given site has been impacted. The newest version of GenGIS supports vector data in addition to raster files. We demonstrate the new features of GenGIS by performing a full gradient analysis of an Australian kangaroo apple data set, by using plugins and embedded statistical commands to analyze human microbiome sample data, and by applying RCA to a set of samples from Atlantic Canada. GenGIS release versions, tutorials and documentation are freely available at http://kiwi.cs.dal.ca/GenGIS, and source code is available at https://github.com/beiko-lab/gengis. PMID:23922841

Parks, Donovan H.; Mankowski, Timothy; Zangooei, Somayyeh; Porter, Michael S.; Armanini, David G.; Baird, Donald J.; Langille, Morgan G. I.; Beiko, Robert G.

2013-01-01

136

GenGIS 2: geospatial analysis of traditional and genetic biodiversity, with new gradient algorithms and an extensible plugin framework.  

PubMed

GenGIS is free and open source software designed to integrate biodiversity data with a digital map and information about geography and habitat. While originally developed with microbial community analyses and phylogeography in mind, GenGIS has been applied to a wide range of datasets. A key feature of GenGIS is the ability to test geographic axes that can correspond to routes of migration or gradients that influence community similarity. Here we introduce GenGIS version 2, which extends the linear gradient tests introduced in the first version to allow comprehensive testing of all possible linear geographic axes. GenGIS v2 also includes a new plugin framework that supports the development and use of graphically driven analysis packages: initial plugins include implementations of linear regression and the Mantel test, calculations of alpha-diversity (e.g., Shannon Index) for all samples, and geographic visualizations of dissimilarity matrices. We have also implemented a recently published method for biomonitoring reference condition analysis (RCA), which compares observed species richness and diversity to predicted values to determine whether a given site has been impacted. The newest version of GenGIS supports vector data in addition to raster files. We demonstrate the new features of GenGIS by performing a full gradient analysis of an Australian kangaroo apple data set, by using plugins and embedded statistical commands to analyze human microbiome sample data, and by applying RCA to a set of samples from Atlantic Canada. GenGIS release versions, tutorials and documentation are freely available at http://kiwi.cs.dal.ca/GenGIS, and source code is available at https://github.com/beiko-lab/gengis. PMID:23922841

Parks, Donovan H; Mankowski, Timothy; Zangooei, Somayyeh; Porter, Michael S; Armanini, David G; Baird, Donald J; Langille, Morgan G I; Beiko, Robert G

2013-01-01

137

Griveaudus gen. nov. (Hemiptera: Fulgoromorpha: Flatidae) from Tsaratanana Massif supports the biodiversity of montane flatids in Madagascar.  

PubMed

The paper describes a new flatid genus, Griveaudus gen. nov., comprising two species G. issidiformis sp. nov. and G. tsarantananae sp. nov. from Madagascar. Additionally, the illustrations of the female internal genital structures are provided.  PMID:25283392

Stroi?ski, Adam; Swierczewski, Dariusz

2014-01-01

138

Mercury: Next-gen Data Analysis and Annotation Pipeline (Seventh Annual Sequencing, Finishing, Analysis in the Future (SFAF) Meeting 2012)  

SciTech Connect

David Sexton (Baylor) gives a talk titled "Mercury: Next-gen Data Analysis and Annotation Pipeline" at the 7th Annual Sequencing, Finishing, Analysis in the Future (SFAF) Meeting held in June, 2012 in Santa Fe, NM.

Sexton, David [Baylor

2012-06-01

139

No quenching of magnetic moment for the GenCo (n=1-13) clusters: First-principles calculations  

NASA Astrophysics Data System (ADS)

The authors predict that for the GenCo (n=1-13) clusters the magnetic moment does not quench, which is dark contrast to the previous results with transition-metal-doped Sin clusters. It may be due to the unpaired electrons of the Co atom in the clusters. For the ground state structures of the GenCo (n?9) clusters, the Co atom completely falls into the center of the Ge outer frame, forming metal-encapsulated Gen cages. The doping of the Co atom enhances the stability of the host Gen clusters. The Ge10Co cluster with the bicapped tetragonal antiprism structure is more stable than others, which agrees very well with the results of the experiment of the Co /Ge binary clusters by the laser vaporization.

Jing, Qun; Tian, Fu-yang; Wang, Yuan-xu

2008-03-01

140

381USDA Forest Service Gen. Tech. Rep. PSW-GTR-160. 1997. Bird Communities in Grazed and  

E-print Network

Oak-PineWoodlands at the San Joaquin Experimental Range1 Jared Verner2 Kathryn L. Purcell2 Jennifer G Service Gen. Tech. Rep. PSW-GTR-160. 1997. Verner and others Bird Communities in Grazed and Ungrazed Oak

Standiford, Richard B.

141

Clinical Evaluation of the Gen-Probe Amplified Direct Test for Detection of Mycobacterium tuberculosis Complex Organisms in Cerebrospinal Fluid  

Microsoft Academic Search

Eighty-four cerebrospinal fluid (CSF) samples from different children who presented with signs and symp- toms of meningitis were evaluated for the presence of Mycobacterium tuberculosis complex organisms by the Gen- Probe Amplified Mycobacterium tuberculosis Direct Test (MTD; Gen-Probe, San Diego, Calif.). All CSF samples had negative acid-fast smears by the Ziehl-Neelsen staining method. M. tuberculosis was recovered from five samples.

ANNE M. LANG; JESUS FERIS-IGLESIAS; CHABELA PENA; JACQUELINE F. SANCHEZ; LESLIE STOCKMAN; PAUL RYS; GLENN D. ROBERTS; NANCY K. HENRY; DAVID H. PERSING; FRANKLIN R. COCKERILL; Robert Reid

1998-01-01

142

Identification and Characterization of Key Human Performance Issues and Research in the Next Generation Air Transportation System (NextGen)  

NASA Technical Reports Server (NTRS)

This report identifies key human-performance-related issues associated with Next Generation Air Transportation System (NextGen) research in the NASA NextGen-Airspace Project. Four Research Focus Areas (RFAs) in the NextGen-Airspace Project - namely Separation Assurance (SA), Airspace Super Density Operations (ASDO), Traffic Flow Management (TFM), and Dynamic Airspace Configuration (DAC) - were examined closely. In the course of the research, it was determined that the identified human performance issues needed to be analyzed in the context of NextGen operations rather than through basic human factors research. The main gaps in human factors research in NextGen were found in the need for accurate identification of key human-systems related issues within the context of specific NextGen concepts and better design of the operational requirements for those concepts. By focusing on human-system related issues for individual concepts, key human performance issues for the four RFAs were identified and described in this report. In addition, mixed equipage airspace with components of two RFAs were characterized to illustrate potential human performance issues that arise from the integration of multiple concepts.

Lee, Paul U.; Sheridan, Tom; Poage, james L.; Martin, Lynne Hazel; Jobe, Kimberly K.

2010-01-01

143

Gen 2.0 Mixer/Ejector Nozzle Test at LSAF June 1995 to July 1996  

NASA Technical Reports Server (NTRS)

Testing of the HSCT Generation 2.0 nozzle model hardware was conducted at the Boeing Low Speed Aeroacoustic Facility, LSAF. Concurrent measurements of noise and thrust were made at critical takeoff design conditions for a variety of mixer/ejector model hardware. Design variables such as suppressor area ratio, mixer area ratio, liner type and thickness, ejector length, lobe penetration, and mixer chute shape were tested. Parallel testing was conducted at G.E.'s Cell 41 acoustic free jet facility to augment the LSAF test. The results from the Gen 2.0 testing are being used to help shape the current nozzle baseline configuration and guide the efforts in the upcoming Generation 2.5 and 3.0 nozzle tests. The Gen 2.0 results have been included in the total airplane system studies conducted at MDC and Boeing to provide updated noise and thrust performance estimates.

Arney, L. D.; Sandquist, D. L.; Forsyth, D. W.; Lidstone, G. L.; Long-Davis, Mary Jo (Technical Monitor)

2005-01-01

144

Neutron Arm Study and Calibration for the GEn Experiment at Thomas Jefferson National Laboratory  

SciTech Connect

The measurement of the neutron electric form factor, GEn, will allow us to solve indirectly for the quark charge distribution inside of the neutron. With the equipment at Jefferson Lab we have measured GEn at four momentum transfer values of Q**2 at 1.3, 2.4 and 3.4 (GeV/c)**2 using a polarized electron beam and polarized Helium target. The scattered electrons off of the Helium target are detected in the BigBite spectrometer and the recoiling neutrons from the Helium are detected in the Neutron Arm, which is composed of an array of scintillators. The main focus of this thesis will be devoted to the geometry, timing and energy calibrations of the Neutron Arm.

Timothy Ngo

2007-07-01

145

Towards Structuring Unstructured GenBank Metadata for Enhancing Comparative Biological Studies  

PubMed Central

Within large sequence repositories such as GenBank there is a wealth of metadata providing contextual information that may enhance search and retrieval of relevant sequences for a range of subsequent analyses. One challenge is the use of free-text in these metadata fields where approaches are needed to extract, structure, and encode essential information. The goal of the present study was to explore the feasibility of using a combination of existing resources for annotating unstructured GenBank metadata, initially focusing on the “host” and “isolation_source” fields. This paper summarizes early results for 10 host organisms that include a characterization of associated isolation sources with respect to biomedical ontologies and semantic types. The findings from this preliminary study provide insights to the rich amount of information captured within these unstructured metadata, guidance for addressing the challenges and issues encountered, and highlight the potential value for enriching comparative biological studies towards improving human health. PMID:22211174

Chen, Elizabeth S.; Sarkar, Indra Neil

2011-01-01

146

GenEvA (II): A phase space generator from a reweighted parton shower  

E-print Network

We introduce a new efficient algorithm for phase space generation. A parton shower is used to distribute events across all of multiplicity, flavor, and phase space, and these events can then be reweighted to any desired analytic distribution. To verify this method, we reproduce the e+e- -> n jets tree-level result of traditional matrix element tools. We also show how to improve tree-level matrix elements automatically with leading-logarithmic resummation. This algorithm is particularly useful in the context of a new framework for event generation called GenEvA. In a companion paper [arXiv:0801.4026], we show how the GenEvA framework can address contemporary issues in event generation.

Christian W. Bauer; Frank J. Tackmann; Jesse Thaler

2008-09-05

147

Parametric Modeling of the Safety Effects of NextGen Terminal Maneuvering Area Conflict Scenarios  

NASA Technical Reports Server (NTRS)

The goal of this work was to analytically identify and quantify the issues, challenges, technical hurdles, and pilot-vehicle interface issues associated with conflict detection and resolution (CD&R)in emerging operational concepts for a NextGen terminal aneuvering area, including surface operations. To this end, the work entailed analytical and trade studies focused on modeling the achievable safety benefits of different CD&R strategies and concepts in the current and future airport environment. In addition, crew-vehicle interface and pilot performance enhancements and potential issues were analyzed based on review of envisioned NextGen operations, expected equipage advances, and human factors expertise. The results of perturbation analysis, which quantify the high-level performance impact of changes to key parameters such as median response time and surveillance position error, show that the analytical model developed could be useful in making technology investment decisions.

Rogers, William H.; Waldron, Timothy P.; Stroiney, Steven R.

2011-01-01

148

Development of an Enhanced GenVARR™ (Generator Volt Ampere Reactive Reserve) System  

SciTech Connect

Transmission system operators require near real time knowledge of reactive power capability to reliably operate large electric power transmission systems. Reactive power produced by, or capable of being produced by, a power generator is often estimated based on a series of mega volt amperes (MVA) capability curves for the generator. These curves indicate the ability of the generator to produce real and reactive power under a variety of conditions. In transmission planning and operating studies, it is often assumed, based on estimates for these capability curves, that the generator can provide its rated MVA capability output when needed for system stability However, generators may not always operate at levels depicted by the maximum MVA capability curve due to present constraints. Transmission system operators utilizing the generators’ capability curves for operation decisions regarding transmission system stability or for planning horizons may overestimate the capability of the generators to supply reactive power when required. Southern Company has enhanced GenVARR(TM), the system of plant data query, retrieval, and analysis and calculates the actual – not estimated -- remaining reactive power output capability. The remaining reactive output is considered spinning reserve and is displayed graphically to transmission control center and generating plant operators to identify real time VAR limits. GenVARR is capable of aggregating generators from a defined region, or other user selectable combinations, to represent the available reserves that the operators are specifically interested in. GenVARR(TM) has been put into live production operation and is expected to significantly improve the overall visibility of the reactive reserve capability of the system. This new version of GenVARR(TM) significantly enhances the products structure and performance, and enables links to other key transmission system operation tools.

Schatz, Joe E.

2009-03-12

149

Phylogenetic analysis of Alloiococcus otitis gen. nov., sp. nov., an organism from human middle ear fluid.  

PubMed

The partial 16S rRNA sequence of an unknown bacterium that was originally isolated from middle ear fluids of children with persistent otitis media was determined by reverse transcription. A comparison of this sequence with sequences from other gram-positive species having low guanine-plus-cytosine contents revealed that this bacterium represents a new line of descent, for which the name Alloiococcus otitis gen. nov., sp. nov., is proposed. The type strain is strain NCFB 2890. PMID:1371065

Aguirre, M; Collins, M D

1992-01-01

150

Enhancing Security of EPCglobal Gen2 RFID Tag against Traceability and Cloning  

Microsoft Academic Search

In this paper, we present a synchronization-based communication protocol for RFID devices. We focus on the EPCGlobal Class-1 Gen-2 RFID tag which supports only simple cryptographic primitives like Pseudo-random Number Generator (PRNG) and Cyclic Redundancy Code (CRC). Our protocol is secure in a sense that it prevents the cloned tags and malicious readers from impersonating and abusing legitimate tags, respectively.

Dang Nguyen Duc; PARK Jaemin; Hyunrok Lee; Kwangjo Kim

2006-01-01

151

Yamaguchia toyensis n. sp., n. gen. (Annelida, Clitellata, Lumbriculidae) from profundal lake habitat in Japan  

USGS Publications Warehouse

Yamaguchia toyensis n. sp., n. gen. is described from an oligotrophic caldera lake, Lake Toya, Hokkaido, Japan. Although the taxonomic affinities are unknown, the genus differs from all other Lumbriculidae in having the combination of testes and atria in X, a single, prosoporous male funnel per atrium, and spermathecae in XI. Unlike other Japanese lakes that have thus far been surveyed, Lake Toya supports abundant populations of lumbriculids in the profundal benthos.

Fend, S.V.; Ohtaka, A.

2004-01-01

152

A System-on-Chip EPC Gen2 Passive UHF RFID Tag With Embedded Temperature Sensor  

Microsoft Academic Search

This paper presents a system-on-chip passive RFID tag with an embedded temperature sensor for the EPC Gen-2 protocol in the 900-MHz UHF frequency band. A dual-path clock generator is proposed to support both applications with either very accurate link frequency or very low power consumption. On-chip temperature sensing is accomplished with a time-readout scheme to reduce the power consumption. Moreover,

Jun Yin; Jun Yi; M. K. Law; Yunxiao Ling; Man Chiu Lee; Kwok Ping Ng; Bo Gao; H. C. Luong; A. Bermak; Mansun Chan; Wing-Hung Ki; Chi-Ying Tsui; M. Yuen

2010-01-01

153

Reclassification of Cellulomonas cellulans (Stackebrandt and Keddie 1986) as Cellulosimicrobium cellulans gen. nov., comb. nov.  

PubMed

Phylogenetic analysis of 16S rDNA provides evidence that Cellulomonas cellulans branches outside the phylogenetic confines of the genus Cellulomonas. The distinct phylogenetic and chemotaxonomic status of Cellulomonas cellulans as a phylogenetic neighbour of the genus Promicromonospora, justifies the description of a new genus for which the name Cellulosimicrobium gen. nov. with the type species Cellulosimicrobium cellulans comb. nov. is proposed. PMID:11411667

Schumann, P; Weiss, N; Stackebrandt, E

2001-05-01

154

The FunGenES Database: A Genomics Resource for Mouse Embryonic Stem Cell Differentiation  

Microsoft Academic Search

Embryonic stem (ES) cells have high self-renewal capacity and the potential to differentiate into a large variety of cell types. To investigate gene networks operating in pluripotent ES cells and their derivatives, the “Functional Genomics in Embryonic Stem Cells” consortium (FunGenES) has analyzed the transcriptome of mouse ES cells in eleven diverse settings representing sixty-seven experimental conditions. To better illustrate

Herbert Schulz; Raivo Kolde; Priit Adler; Irène Aksoy; Konstantinos Anastassiadis; Michael Bader; Nathalie Billon; Hélène Boeuf; Pierre-Yves Bourillot; Frank Buchholz; Christian Dani; Michael Xavier Doss; Lesley Forrester; Murielle Gitton; Domingos Henrique; Jürgen Hescheler; Heinz Himmelbauer; Norbert Hübner; Efthimia Karantzali; Androniki Kretsovali; Sandra Lubitz; Laurent Pradier; Meena Rai; Jüri Reimand; Alexandra Rolletschek; Agapios Sachinidis; Pierre Savatier; Francis Stewart; Mike P. Storm; Marina Trouillas; Jaak Vilo; Melanie J. Welham; Johannes Winkler; Anna M. Wobus; Antonis K. Hatzopoulos; Mai Har Sham

2009-01-01

155

Towards a distributed situation management capability for SESAR and NextGen  

Microsoft Academic Search

This paper is concerned with the design of a distributed aviation security situation management capability in SESAR and NextGen. This research-in-progress report presents an approach to distributed situation management based on the concepts of network-centric operations and agent-based modeling. In particular, One of the key issues in aviation security is that despite their catastrophic magnitude, incidents are rare and their

Rainer Koelle; Alex Tarter

2012-01-01

156

Leptojacobus dorci n. gen., n. sp. (Nematoda: Diplogastridae), an Associate of Dorcus Stag Beetles (Coleoptera: Lucanidae)  

PubMed Central

A new species of diplogastrid nematode, Leptojacobus dorci n. gen., n. sp., was isolated from adults of the stag beetle Dorcus ritsemae (Coleoptera: Lucanidae) that were purchased from a pet shop in Japan. Leptojacobus n. gen. is circumscribed by a very thin, delicate body and by a small stoma with minute armature. A combination of other stomatal characters, namely the division of the cheilostom into adradial plates, the symmetry of the subventral stegostomatal sectors, and the presence of a thin, conical dorsal tooth, further distinguishes Leptojacobus n. gen. from other genera of Diplogastridae. Phylogenetic analysis of nearly full-length SSU rRNA sequences support the new species, together with an isolate identified previously as Koerneria luziae, to be excluded from a clade including all other molecularly characterized diplogastrids with teeth and stomatal dimorphism. Therefore, the new species will be of importance for reconstruction of ancestral character histories in Diplogastridae, a family circumscribed by a suite of feeding-related novelties. PMID:24644371

Kanzaki, Natsumi; Ragsdale, Erik J.; Susoy, Vladislav; Sommer, Ralf J.

2014-01-01

157

Enhanced and Synthetic Vision for Terminal Maneuvering Area NextGen Operations  

NASA Technical Reports Server (NTRS)

Synthetic Vision Systems and Enhanced Flight Vision System (SVS/EFVS) technologies have the potential to provide additional margins of safety for aircrew performance and enable operational improvements for low visibility operations in the terminal area environment with equivalent efficiency as visual operations. To meet this potential, research is needed for effective technology development and implementation of regulatory and design guidance to support introduction and use of SVS/EFVS advanced cockpit vision technologies in Next Generation Air Transportation System (NextGen) operations. A fixed-base pilot-in-the-loop simulation test was conducted at NASA Langley Research Center that evaluated the use of SVS/EFVS in NextGen low visibility ground (taxi) operations and approach/landing operations. Twelve crews flew approach and landing operations in a simulated NextGen Chicago O Hare environment. Various scenarios tested the potential for EFVS for operations in visibility as low as 1000 ft runway visibility range (RVR) and SVS to enable lower decision heights (DH) than can currently be flown today. Expanding the EFVS visual segment from DH to the runway in visibilities as low as 1000 RVR appears to be viable as touchdown performance was excellent without any workload penalties noted for the EFVS concept tested. A lower DH to 150 ft and/or possibly reduced visibility minima by virtue of SVS equipage appears to be viable when implemented on a Head-Up Display, but the landing data suggests further study for head-down implementations.

Kramer, Lynda J.; Bailey, Randall E.; Ellis, Kyle K. E.; Norman, R. Michael; Williams, Steven P.; Arthur, Jarvis J., III; Shelton, Kevin J.; Prinzel, Lawrence J., III

2011-01-01

158

Enhanced and synthetic vision for terminal maneuvering area NextGen operations  

NASA Astrophysics Data System (ADS)

Synthetic Vision Systems and Enhanced Flight Vision System (SVS/EFVS) technologies have the potential to provide additional margins of safety for aircrew performance and enable operational improvements for low visibility operations in the terminal area environment with equivalent efficiency as visual operations. To meet this potential, research is needed for effective technology development and implementation of regulatory and design guidance to support introduction and use of SVS/EFVS advanced cockpit vision technologies in Next Generation Air Transportation System (NextGen) operations. A fixed-base pilot-in-the-loop simulation test was conducted at NASA Langley Research Center that evaluated the use of SVS/EFVS in NextGen low visibility ground (taxi) operations and approach/landing operations. Twelve crews flew approach and landing operations in a simulated NextGen Chicago O'Hare environment. Various scenarios tested the potential for EFVS for operations in visibility as low as 1000 ft runway visibility range (RVR) and SVS to enable lower decision heights (DH) than can currently be flown today. Expanding the EFVS visual segment from DH to the runway in visibilities as low as 1000 RVR appears to be viable as touchdown performance was excellent without any workload penalties noted for the EFVS concept tested. A lower DH to 150 ft and/or possibly reduced visibility minima by virtue of SVS equipage appears to be viable when implemented on a Head-Up Display, but the landing data suggests further study for head-down implementations.

Kramer, Lynda J.; Bailey, Randall E.; Ellis, Kyle K. E.; Norman, R. Michael; Williams, Steven P.; Arthur, Jarvis J., III; Shelton, Kevin J.; Prinzel, Lawrence J., III

2011-06-01

159

Symbiomonas scintillans gen. et sp. nov. and Picophagus flagellatus gen. et sp. nov. (Heterokonta): two new heterotrophic flagellates of picoplanktonic size.  

PubMed

Two new oceanic free-living heterotrophic Heterokonta species with picoplanktonic size (< 2 microm) are described. Symbiomonas scintillans Guillou et Chrétiennot-Dinet gen. et sp. nov. was isolated from samples collected both in the equatorial Pacific Ocean and the Mediterranean Sea. This new species possesses ultrastructural features of the bicosoecids, such as the absence of a helix in the flagellar transitional region (found in Cafeteria roenbergensis and in a few bicosoecids), and a flagellar root system very similar to that of C. roenbergensis, Acronema sippewissettensis, and Bicosoeca maris. This new species is characterized by a single flagellum with mastigonemes, the presence of endosymbiotic bacteria located close to the nucleus, the absence of a lorica and a R3 root composed of a 6+3+x microtubular structure. Phylogenetical analyses of nuclear-encoded SSU rDNA gene sequences indicate that this species is close to the bicosoecids C. roenbergensis and Siluania monomastiga. Picophagus flagellatus Guillou et Chrétiennot-Dinet gen. et sp. nov. was collected in the equatorial Pacific Ocean. Cells are naked and possess two flagella. This species is characterized by the lack of a transitional helix and lateral filaments on the flagellar tubular hairs, the absence of siliceous scales, two unequal flagella, R1 + R3 roots, and the absence of a rhizoplast. SSU rDNA analyses place this strain at the base of the Chrysophyceae/Synurophyceae lineages. PMID:10714773

Guillou, L; Chrétiennot-Dinet, M J; Boulben, S; Moon-van der Staay, S Y; Vaulot, D

1999-12-01

160

Genome-scale data suggest reclassifications in the Leisingera-Phaeobacter cluster including proposals for Sedimentitalea gen. nov. and Pseudophaeobacter gen. nov.  

PubMed Central

Earlier phylogenetic analyses of the marine Rhodobacteraceae (class Alphaproteobacteria) genera Leisingera and Phaeobacter indicated that neither genus might be monophyletic. We here used phylogenetic reconstruction from genome-scale data, MALDI-TOF mass-spectrometry analysis and a re-assessment of the phenotypic data from the literature to settle this matter, aiming at a reclassification of the two genera. Neither Phaeobacter nor Leisingera formed a clade in any of the phylogenetic analyses conducted. Rather, smaller monophyletic assemblages emerged, which were phenotypically more homogeneous, too. We thus propose the reclassification of Leisingera nanhaiensis as the type species of a new genus as Sedimentitalea nanhaiensis gen. nov., comb. nov., the reclassification of Phaeobacter arcticus and Phaeobacter leonis as Pseudophaeobacter arcticus gen. nov., comb. nov. and Pseudophaeobacter leonis comb. nov., and the reclassification of Phaeobacter aquaemixtae, Phaeobacter caeruleus, and Phaeobacter daeponensis as Leisingera aquaemixtae comb. nov., Leisingera caerulea comb. nov., and Leisingera daeponensis comb. nov. The genera Phaeobacter and Leisingera are accordingly emended. PMID:25157246

Breider, Sven; Scheuner, Carmen; Schumann, Peter; Fiebig, Anne; Petersen, Jörn; Pradella, Silke; Klenk, Hans-Peter; Brinkhoff, Thorsten; Göker, Markus

2014-01-01

161

FutureGen: Stepping-Stone to Sustainable Fossil-Fuel Power Generation  

SciTech Connect

This presentation will highlight the U.S. Department of Energy's FutureGen Initiative. The nearly $1 billion government-industry project is a stepping-stone toward future coal-fired power plants that will produce hydrogen and electricity with zero-emissions, including carbon dioxide. The 275-megawatt FutureGen plant will initiate operations around 2012 and employ advanced coal gasification technology integrated with combined cycle electricity generation, hydrogen production, and carbon capture and sequestration. The initiative is a response to a presidential directive to develop a hydrogen economy by drawing upon the best scientific research to address the issue of global climate change. The FutureGen plant will be based on cutting-edge power generation technology as well as advanced carbon capture and sequestration systems. The centerpiece of the project will be coal gasification technology that can eliminate common air pollutants such as sulfur dioxide and nitrogen oxides and convert them to useable by-products. Gasification will convert coal into a highly enriched hydrogen gas, which can be burned much more cleanly than directly burning the coal itself. Alternatively, the hydrogen can be used in a fuel cell to produce ultra-clean electricity, or fed to a refinery to help upgrade petroleum products. Carbon sequestration will also be a key feature that will set the Futuregen plant apart from other electric power plant projects. The initial goal will be to capture 90 percent of the plant's carbon dioxide, but capture of nearly 100 percent may be possible with advanced technologies. Once captured, the carbon dioxide will be injected as a compressed fluid deep underground, perhaps into saline reservoirs. It could even be injected into oil or gas reservoirs, or into unmineable coal seams, to enhance petroleum or coalbed methane recovery. The ultimate goal for the FutureGen plant is to show how new technology can eliminate environmental concerns over the future use of coal--the most abundant fossil fuel in the United States with supplies projected to last 250 years. FutureGen's co-production of power and hydrogen will also serve as a stepping-stone to an environmentally sustainable energy future.

Zitney, S.E.

2006-11-01

162

Selected AGXT gene mutations analysis provides a genetic diagnosis in 28% of Tunisian patients with primary hyperoxaluria  

Microsoft Academic Search

Background  Primary hyperoxaluria type I (PH1) is a rare genetic disorder characterized by allelic and clinical heterogeneity. Four mutations\\u000a (G170R, 33_34insC, I244T and F152I) account for more than 50% of PH1 alleles and form the basis for diagnostic genetic screening\\u000a for PH1. We aimed to analyze the prevalence of these specific mutations causing PH1, and to provide an accurate tool for

Ibtihel Benhaj Mbarek; Saoussen Abroug; Asma Omezzine; Dorsaf Zellama; Abdellatif Achour; Abdelaziz Harbi; Ali Bouslama

2011-01-01

163

Data-Link and Surface Map Traffic Intent Displays for NextGen 4DT and Equivalent Visual Surface Operations  

NASA Technical Reports Server (NTRS)

By 2025, U.S. air traffic is predicted to increase 3-fold and may strain the current air traffic management system, which may not be able to accommodate this growth. In response to this challenge, a consortium of industry, academia and government agencies have proposed a revolutionary new concept for U.S. aviation operations, termed the Next Generation Air Transportation System or "NextGen". Many key capabilities are being identified to enable NextGen, including the concept of "net-centric" operations whereby each aircraft and air services provider shares information to allow real-time adaptability to ever-changing factors such as weather, traffic, flight trajectories, and security. Data-link is likely to be the primary source of communication in NextGen. Because NextGen represents a radically different approach to air traffic management and requires a dramatic shift in the tasks, roles, and responsibilities for the flight deck, there are numerous research issues and challenges that must be overcome to ensure a safe, sustainable air transportation system. Flight deck display and crew-vehicle interaction concepts are being developed that proactively investigate and overcome potential technology and safety barriers that might otherwise constrain the full realization of NextGen.

Shelton, Kevin J.; Prinzel, Lawrence J., III; Arthur, Jarvis J., III; Jones, Deise R.; Allamandola, Angela S.; Bailey, Randall E.

2009-01-01

164

Roles of SLX1-SLX4, MUS81-EME1, and GEN1 in avoiding genome instability and mitotic catastrophe.  

PubMed

The resolution of recombination intermediates containing Holliday junctions (HJs) is critical for genome maintenance and proper chromosome segregation. Three pathways for HJ processing exist in human cells and involve the following enzymes/complexes: BLM-TopoIII?-RMI1-RMI2 (BTR complex), SLX1-SLX4-MUS81-EME1 (SLX-MUS complex), and GEN1. Cycling cells preferentially use the BTR complex for the removal of double HJs in S phase, with SLX-MUS and GEN1 acting at temporally distinct phases of the cell cycle. Cells lacking SLX-MUS and GEN1 exhibit chromosome missegregation, micronucleus formation, and elevated levels of 53BP1-positive G1 nuclear bodies, suggesting that defects in chromosome segregation lead to the transmission of extensive DNA damage to daughter cells. In addition, however, we found that the effects of SLX4, MUS81, and GEN1 depletion extend beyond mitosis, since genome instability is observed throughout all phases of the cell cycle. This is exemplified in the form of impaired replication fork movement and S-phase progression, endogenous checkpoint activation, chromosome segmentation, and multinucleation. In contrast to SLX4, SLX1, the nuclease subunit of the SLX1-SLX4 structure-selective nuclease, plays no role in the replication-related phenotypes associated with SLX4/MUS81 and GEN1 depletion. These observations demonstrate that the SLX1-SLX4 nuclease and the SLX4 scaffold play divergent roles in the maintenance of genome integrity in human cells. PMID:24831703

Sarbajna, Shriparna; Davies, Derek; West, Stephen C

2014-05-15

165

GEN1 from a Thermophilic Fungus Is Functionally Closely Similar to Non-Eukaryotic Junction-Resolving Enzymes.  

PubMed

Processing of Holliday junctions is essential in recombination. We have identified the gene for the junction-resolving enzyme GEN1 from the thermophilic fungus Chaetomium thermophilum and expressed the N-terminal 487-amino-acid section. The protein is a nuclease that is highly selective for four-way DNA junctions, cleaving 1nt 3' to the point of strand exchange on two strands symmetrically disposed about a diagonal axis. CtGEN1 binds to DNA junctions as a discrete homodimer with nanomolar affinity. Analysis of the kinetics of cruciform cleavage shows that cleavage of the second strand occurs an order of magnitude faster than the first cleavage so as to generate a productive resolution event. All these properties are closely similar to those described for bacterial, phage and mitochondrial junction-resolving enzymes. CtGEN1 is also similar in properties to the human enzyme but lacks the problems with aggregation that currently prevent detailed analysis of the latter protein. CtGEN1 is thus an excellent enzyme with which to engage in biophysical and structural analysis of eukaryotic GEN1. PMID:25315822

Freeman, Alasdair D J; Liu, Yijin; Déclais, Anne-Cécile; Gartner, Anton; Lilley, David M J

2014-12-12

166

GEN1 from a Thermophilic Fungus Is Functionally Closely Similar to Non-Eukaryotic Junction-Resolving Enzymes  

PubMed Central

Processing of Holliday junctions is essential in recombination. We have identified the gene for the junction-resolving enzyme GEN1 from the thermophilic fungus Chaetomium thermophilum and expressed the N-terminal 487-amino-acid section. The protein is a nuclease that is highly selective for four-way DNA junctions, cleaving 1 nt 3? to the point of strand exchange on two strands symmetrically disposed about a diagonal axis. CtGEN1 binds to DNA junctions as a discrete homodimer with nanomolar affinity. Analysis of the kinetics of cruciform cleavage shows that cleavage of the second strand occurs an order of magnitude faster than the first cleavage so as to generate a productive resolution event. All these properties are closely similar to those described for bacterial, phage and mitochondrial junction-resolving enzymes. CtGEN1 is also similar in properties to the human enzyme but lacks the problems with aggregation that currently prevent detailed analysis of the latter protein. CtGEN1 is thus an excellent enzyme with which to engage in biophysical and structural analysis of eukaryotic GEN1. PMID:25315822

Freeman, Alasdair D.J.; Liu, Yijin; Déclais, Anne-Cécile; Gartner, Anton; Lilley, David M.J.

2014-01-01

167

Data-link and surface map traffic intent displays for NextGen 4DT and equivalent visual surface operations  

NASA Astrophysics Data System (ADS)

By 2025, U.S. air traffic is predicted to increase 3-fold and may strain the current air traffic management system, which may not be able to accommodate this growth. In response to this challenge, a consortium of industry, academia and government agencies have proposed a revolutionary new concept for U.S. aviation operations, termed the Next Generation Air Transportation System or "NextGen". Many key capabilities are being identified to enable NextGen, including the concept of "net-centric" operations whereby each aircraft and air services provider shares information to allow real-time adaptability to ever-changing factors such as weather, traffic, flight trajectories, and security. Data-link is likely to be the primary source of communication in NextGen. Because NextGen represents a radically different approach to air traffic management and requires a dramatic shift in the tasks, roles, and responsibilities for the flight deck, there are numerous research issues and challenges that must be overcome to ensure a safe, sustainable air transportation system. Flight deck display and crew-vehicle interaction concepts are being developed that proactively investigate and overcome potential technology and safety barriers that might otherwise constrain the full realization of NextGen.

Shelton, Kevin J.; Prinzel, Lawrence (Lance) J., III; Arthur, Jarvis (Trey) J., III; Jones, Denise R.; Allamandola, Angela S.; Bailey, Randall E.

2009-05-01

168

Hungatella effluvii gen. nov., sp. nov., an obligately anaerobic bacterium isolated from an effluent treatment plant, and reclassification of Clostridium hathewayi as Hungatella hathewayi gen. nov., comb. nov.  

PubMed

A Gram-stain-positive, rod-shaped, spore-forming and strictly anaerobic bacterium, designated UB-B.2(T), was isolated from an industrial effluent anaerobic digester sample. It grew optimally at 30 °C and pH 7.0. Comparative analysis of the 16S rRNA gene sequence confirmed that strain UB-B.2(T) was closely related to Clostridium hathewayi DSM 13479(T) (97.84% similarity), a member of rRNA gene cluster XIVa of the genus Clostridium, and formed a coherent cluster with other related members of the Blautia (Clostridium) coccoides rRNA group in phylogenetic analyses. The end products of glucose fermentation by strain UB-B.2(T) were acetate and propionate. The G+C content of the DNA was 51.4 mol%. Although strain UB-B.2(T) showed 97.8% 16S rRNA gene sequence identity to the type strain of C. hathewayi, it exhibited only 38.4% relatedness at the whole-genome level. It also showed differences from its closest phylogenetic relative, C. hathewayi DSM 13479(T), in phenotypic characteristics such as hydrolysis of aesculin, starch and urea and fermentation end products. Both strains showed phenotypic differences from the members of rRNA gene cluster XIVa of the genus Clostridium. Based on these differences, C. hathewayi DSM 13479(T) and strain UB-B.2(T) were identified as representatives of a new genus of the family Clostridiaceae. Thus, we propose the reclassification of Clostridium hathewayi as Hungatella hathewayi gen. nov., comb. nov., the type species of the new genus (type strain DSM 13479(T)?=?CCUG 43506(T)?=?MTCC 10951(T)). Strain UB-B.2(T) (?=?MTCC 11101(T)?=?DSM 24995(T)) is assigned to the novel species Hungatella effluvii gen. nov., sp. nov as the type strain. PMID:24186873

Kaur, Sukhpreet; Yawar, Mir; Kumar, P Anil; Suresh, K

2014-03-01

169

New aerobic ammonium-dependent obligately oxalotrophic bacteria: description of Ammoniphilus oxalaticus gen. nov., sp. nov. and Ammoniphilus oxalivorans gen. nov., sp. nov.  

PubMed

The genus Ammoniphilus is proposed for aerobic endospore-forming Gram-variable rod-shaped bacteria, which are ammonium-dependent, obligately oxalotrophic and haloalkalitolerant, oxidase- and catalase-positive, mesophilic and motile by peritrichous flagella. Cell wall contained two electron-dense layers. The external layer consists of a chain of electron-dense granules morphologically resembling the cellulosomes of Clostridium thermocellum. Two species are described, Ammoniphilus oxalaticus gen. nov., sp. nov. and Ammoniphilus oxalivorans gen. nov., sp. nov. The type strains of these species are strains RAOx-1 (= DSM 11538) and RAOx-FS (= DSM 11537), respectively. Ammoniphilus strains were isolated from the rhizosphere of sorrel (Rumex acetosa) and from decaying wood. The strains require a high concentration of ammonium ions and use oxalate as the sole organic source of carbon and energy for growth; no growth factors were required. Growth occurred at pH 6.8-9.5. The optimum temperature and pH for growth were 28-30 degrees C and 8.0-8.5. All strains grew in a saturated solution of ammonium oxalate, and tolerated 3% NaCl. Whole-cell hydrolysates contain meso-diaminopimelic acid and glucose. The menaquinone of the strains was MK 7, and the major cellular fatty acids were 12-methyl tetradecanoic, cis-hexadec-9-enoic and hexadecanoic acids. The G + C content of the DNA was 45-46 mol% for A. oxalaticus and 42 mol% for A. oxalivorans. The almost complete 16S rDNA sequence of three strains of the two species of Ammoniphilus shows that the genus falls into the radiation of the Clostridium-Bacillus subphylum of Gram-positive bacteria. The closest phylogenetic neighbour of Ammoniphilus is Oxalophagus oxalicus. The DNA-DNA hybridization value between strains RAOx-1 and RAOx-FS was 39.7%. PMID:9542085

Zaitsev, G M; Tsitko, I V; Rainey, F A; Trotsenko, Y A; Uotila, J S; Stackebrandt, E; Salkinoja-Salonen, M S

1998-01-01

170

Next Gen NEAR: Near Earth Asteroid Human Robotic Precursor Mission Concept  

NASA Technical Reports Server (NTRS)

Asteroids have long held the attention of the planetary science community. In particular, asteroids that evolve into orbits near that of Earth, called near-Earth objects (NEO), are of high interest as potential targets for exploration due to the relative ease (in terms of delta V) to reach them. NASA's Flexible Path calls for missions and experiments to be conducted as intermediate steps towards the eventual goal of human exploration of Mars; piloted missions to NEOs are such example. A human NEO mission is a valuable exploratory step beyond the Earth-Moon system enhancing capabilities that surpass our current experience, while also developing infrastructure for future mars exploration capabilities. To prepare for a human rendezvous with an NEO, NASA is interested in pursuing a responsible program of robotic NEO precursor missions. Next Gen NEAR is such a mission, building on the NEAR Shoemaker mission experience at the JHU/APL Space Department, to provide an affordable, low risk solution with quick data return. Next Gen NEAR proposes to make measurements needed for human exploration to asteroids: to demonstrate proximity operations, to quantify hazards for human exploration and to characterize an environment at a near-Earth asteroid representative of those that may be future human destinations. The Johns Hopkins University Applied Physics Laboratory has demonstrated exploration-driven mission feasibility by developing a versatile spacecraft design concept using conventional technologies that satisfies a set of science, exploration and mission objectives defined by a concept development team in the summer of 2010. We will describe the mission concept and spacecraft architecture in detail. Configuration options were compared with the mission goals and objectives in order to select the spacecraft design concept that provides the lowest cost, lowest implementation risk, simplest operation and the most benefit for the mission implementation. The Next Gen NEAR spacecraft was designed to support rendezvous with a range of candidate asteroid targets and could easily be launched with one of several NASA launch vehicles. The Falcon 9 launch vehicle supports a Next Gen NEAR launch to target many near-Earth asteroids under consideration that could be reached with a C3 of 18 km2/sec2 or less, and the Atlas V-401 provides added capability supporting launch to NEAs that require more lift capacity while at the same time providing such excess lift capability that another payload of opportunity could be launch in conjunction with Next Gen NEAR. Next Gen NEAR will measure and interact with the target surface in ways never undertaken at an asteroid, and will prepare for first human precursor mission by demonstrating exploration science operations at an accessible NEO. This flexible mission and spacecraft design concept supports target selection based on upcoming Earth-based observations and also provides opportunities for co-manifest & international partnerships. JHU/APL has demonstrated low cost, low risk, high impact missions and this mission will help to prepare NASA for human NEO exploration by combining the best of NASA s human and robotic exploration capabilities.

Rivkin, Andrew S.; Kirby, Karen; Cheng, Andrew F.; Gold, Robert; Kelly, Daniel; Reed, Cheryl; Abell, Paul; Garvin, James; Landis, Rob

2012-01-01

171

Enhanced Flight Vision Systems and Synthetic Vision Systems for NextGen Approach and Landing Operations  

NASA Technical Reports Server (NTRS)

Synthetic Vision Systems and Enhanced Flight Vision System (SVS/EFVS) technologies have the potential to provide additional margins of safety for aircrew performance and enable operational improvements for low visibility operations in the terminal area environment with equivalent efficiency as visual operations. To meet this potential, research is needed for effective technology development and implementation of regulatory standards and design guidance to support introduction and use of SVS/EFVS advanced cockpit vision technologies in Next Generation Air Transportation System (NextGen) operations. A fixed-base pilot-in-the-loop simulation test was conducted at NASA Langley Research Center that evaluated the use of SVS/EFVS in NextGen low visibility approach and landing operations. Twelve crews flew approach and landing operations in a simulated NextGen Chicago O'Hare environment. Various scenarios tested the potential for using EFVS to conduct approach, landing, and roll-out operations in visibility as low as 1000 feet runway visual range (RVR). Also, SVS was tested to evaluate the potential for lowering decision heights (DH) on certain instrument approach procedures below what can be flown today. Expanding the portion of the visual segment in which EFVS can be used in lieu of natural vision from 100 feet above the touchdown zone elevation to touchdown and rollout in visibilities as low as 1000 feet RVR appears to be viable as touchdown performance was acceptable without any apparent workload penalties. A lower DH of 150 feet and/or possibly reduced visibility minima using SVS appears to be viable when implemented on a Head-Up Display, but the landing data suggests further study for head-down implementations.

Kramer, Lynda J.; Bailey, Randall E.; Ellis, Kyle K. E.; Williams, Steven P.; Arthur, Jarvis J., III; Prinzel, Lawrence J., III; Shelton, Kevin J.

2013-01-01

172

Generalized Background Error covariance matrix model (GEN_BE v2.0)  

NASA Astrophysics Data System (ADS)

The specification of state background error statistics is a key component of data assimilation since it affects the impact observations will have on the analysis. In the variational data assimilation approach, applied in geophysical sciences, the dimensions of the background error covariance matrix (B) are usually too large to be explicitly determined and B needs to be modeled. Recent efforts to include new variables in the analysis such as cloud parameters and chemical species have required the development of the code to GENerate the Background Errors (GEN_BE) version 2.0 for the Weather Research and Forecasting (WRF) community model to allow for a simpler, flexible, robust, and community-oriented framework that gathers methods used by meteorological operational centers and researchers. We present the advantages of this new design for the data assimilation community by performing benchmarks and showing some of the new features on data assimilation test cases. As data assimilation for clouds remains a challenge, we present a multivariate approach that includes hydrometeors in the control variables and new correlated errors. In addition, the GEN_BE v2.0 code is employed to diagnose error parameter statistics for chemical species, which shows that it is a tool flexible enough to involve new control variables. While the generation of the background errors statistics code has been first developed for atmospheric research, the new version (GEN_BE v2.0) can be easily extended to other domains of science and be chosen as a testbed for diagnostic and new modeling of B. Initially developed for variational data assimilation, the model of the B matrix may be useful for variational ensemble hybrid methods as well.

Descombes, G.; Auligné, T.; Vandenberghe, F.; Barker, D. M.

2014-07-01

173

Technology discussion of reducing the equivalent background illumination of Gen ? Image Intensifier  

NASA Astrophysics Data System (ADS)

As the development of Gen III Image Intensifier, photocathode sensitivity, spatial static resolution and signal-to-noise ratio of the devices are continuously improved except for the view effect. However, for most devices, the equivalent background illumination (EBI) is excessive, and considerable part is more than an order of magnitude. Many factors have an effect on the EBI of the Gen III Image Intensifier. By academic analysis and experiment research, it is demonstrated that: It is the thermal electron emission of photocathode, dark current, gain of micro-channel plate (MCP) with ion barrier film(IBF), electric field strength between MCP and photocathode and the light feedback of phosphor that lend to the EBI, but for the phosphor screen made by the normal process, because of the aluminum film, EBI caused by the optical feedback is slightly lower, which can not cause the excessive EBI. For the MCP with IBF after normal processing, even the first focused voltage is added to 350V, the EBI does not exceed the highest value of 1.66×10-7 allowed by national military standard. Needless to say the photocathode is the focus factor of the EBI after excluding the phosphor screen, the MCP and other influencing factors. It is believed that the thermal electron emission of photocathode leads to the excessive EBI. Finally, without reducing the photocathode sensitivity, by optimizing activation technics, i.e., reduce CsO quantity, and aging test disposal, the thermal electron emission is weaken, the EBI is becoming lower, most of the products satisfy with request of technical standard in this index. That is valuable to accelerate the engineering of Gen III Image Intensifier.

Zhu, Yu-feng; Zhang, Ni; Li, Dan; Nie, Jing; Zhang, Tai-min; Liu, Xiao-jian; Liu, Zhao-lu; Fu, Ling-Yun

2013-08-01

174

Collagen (NeuraGen®) nerve conduits and stem cells for peripheral nerve gap repair.  

PubMed

Collagen nerve guides are used clinically for peripheral nerve defects, but their use is generally limited to lesions up to 3 cm. In this study we combined collagen conduits with cells as an alternative strategy to support nerve regeneration over longer gaps. In vitro cell adherence to collagen conduits (NeuraGen(®) nerve guides) was assessed by scanning electron microscopy. For in vivo experiments, conduits were seeded with either Schwann cells (SC), SC-like differentiated bone marrow-derived mesenchymal stem cells (dMSC), SC-like differentiated adipose-derived stem cells (dASC) or left empty (control group), conduits were used to bridge a 1cm gap in the rat sciatic nerve and after 2-weeks immunohistochemical analysis was performed to assess axonal regeneration and SC infiltration. The regenerative cells showed good adherence to the collagen walls. Primary SC showed significant improvement in distal stump sprouting. No significant differences in proximal regeneration distances were noticed among experimental groups. dMSC and dASC-loaded conduits showed a diffuse sprouting pattern, while SC-loaded showed an enhanced cone pattern and a typical sprouting along the conduits walls, suggesting an increased affinity for the collagen type I fibrillar structure. NeuraGen(®) guides showed high affinity of regenerative cells and could be used as efficient vehicle for cell delivery. However, surface modifications (e.g. with extracellular matrix molecule peptides) of NeuraGen(®) guides could be used in future tissue-engineering applications to better exploit the cell potential. PMID:24792394

di Summa, Pietro G; Kingham, Paul J; Campisi, Corrado C; Raffoul, Wassim; Kalbermatten, Daniel F

2014-06-20

175

Gen IV Materials Handbook Functionalities and Operation (4A) Handbook Version 4.0  

SciTech Connect

This document is prepared for navigation and operation of the Gen IV Materials Handbook, with architecture description and new user access initiation instructions. Development rationale and history of the Handbook is summarized. The major development aspects, architecture, and design principles of the Handbook are briefly introduced to provide an overview of its past evolution and future prospects. Detailed instructions are given with examples for navigating the constructed Handbook components and using the main functionalities. Procedures are provided in a step-by-step fashion for Data Upload Managers to upload reports and data files, as well as for new users to initiate Handbook access.

Ren, Weiju [ORNL

2013-09-01

176

Obesoconnus gen. n., a new bizarre Neotropical genus of Cyrtoscydmini (Coleoptera: Staphylinidae: Scydmaeninae).  

PubMed

A new Neotropical genus of Cyrtoscydmini, Obesoconnus gen. n., is described to accommodate two new species: O. guyanensis sp. n. (the type species of Obesoconnus) from French Guyana and O. mexicanus sp. n. from Mexico. The morphology of the new taxon is described and illustrated in detail, and its possible affinities to other Cyrtoscydmini are discussed. Despite external dissimilarities, the aedeagus of Obesoconnus highly resembles copulatory organs of Alloraphes and Parastenichnaphes; all these genera share the basal pumping apparatus and apically located ostium with asymmetrical apical projections. PMID:24870336

Ja?oszy?ski, Pawe?

2014-01-01

177

Modeling Off-Nominal Recovery in NextGen Terminal-Area Operations  

NASA Technical Reports Server (NTRS)

Robust schedule-based arrival management requires efficient recovery from off-nominal situations. This paper presents research on modeling off-nominal situations and plans for recovering from them using TRAC, a route/airspace design, fast-time simulation, and analysis tool for studying NextGen trajectory-based operations. The paper provides an overview of a schedule-based arrival-management concept and supporting controller tools, then describes TRAC implementations of methods for constructing off-nominal scenarios, generating trajectory options to meet scheduling constraints, and automatically producing recovery plans.

Callantine, Todd J.

2011-01-01

178

Kennedy Space Center Next Gen Site: Routine, Affordable Access to Space  

NSDL National Science Digital Library

The Next Gen Site, operated by the National Aeronautics and Space Administration at Kennedy Space Center, is investigating ways of making space travel more routine and affordable. The site offers many reports on the Vision Spaceport Partnership, the Highly Reusable Space Transportation Project, Space Solar Power, and Space Transportation System Affordability. A map of Cape Canaveral highlights each launch pad, and you can see information on each one by clicking on it. Related Info Including X-Vehicles is a section with background on several experimental projects and has links to sites that examine different aspects of design and planning for easier access to space.

1997-01-01

179

Dematiocladium celtidis gen. sp. nov. (Nectriaceae, Hypocreales), a new genus from Celtis leaf litter in Argentina.  

PubMed

A Cylindrocladium-like hyphomycete collected on leaf litter of Celtis tala in Argentina had rDNA sequence data (ITS and LSU) that showed it resides in the Hypocreales, and is a member of the Nectriaceae, closely related to, but distinct from Cylindrocladium. A new genus, Dematiocladium and species, D. celtidis gen. sp. nov. is, therefore, introduced to accommodate this fungus. Based on morphology, it can be distinguished from other conidial hypocrealean genera with hyaline, penicillate conidiophores and cylindrical conidia by lacking stipe extensions and vesicles, and by the presence of brown to dark brown, thick-walled setae. PMID:16121570

Crous, Pedro W; Allegrucci, Natalia; Arambarri, Angélica Margarita; Cazau, María Cecilia; Groenewald, Johannes Z; Wingfield, Michael J

2005-07-01

180

Hassiella monospora gen. et sp. nov., a microfungus from the 400 million year old Rhynie chert.  

PubMed

A new microfungus, Hassiella monospora gen. et sp. nov., consisting of coenocytic hyphae is associated with degraded plant material in the Early Devonian silicified Rhynie chert ecosystem. Some hyphae produce small bulb-like projections that subsequently develop into spherical, thick-walled and highly ornamented reproductive structures. Mature reproductive structures are characterized by a prominent, funnel-shaped appendage that is interpreted as an amphigynous antheridium. When combined, these features are suggestive of the oogonia/oosporangia in certain extant members of the Peronosporomycetes (Oomycota). PMID:16765584

Taylor, Thomas N; Krings, Michael; Kerp, Hans

2006-06-01

181

Brockphasma spinifemoralis gen. et spec. nov.: a new phasmid genus and new species of Neohiraseini (Phasmida: Necrosciinae) from Vietnam.  

PubMed

A new genus of stick insects, Brockphasma Ho gen. nov., with the type-species, Brockphasma spinifemoralis Ho, Liu, Bresseel & Constant spec. nov., is described and illustrated from Vietnam. Both sexes, the egg and the first instar nymph are described and figured. Data on the habitat and natural foodplants are provided. Brockphasma Ho gen. nov. is differentiated from other genera in Neohiraseini by spinose occiput, anterior region of mesonotum with a spinose hump and spinose anterodorsal and posterodorsal carinae of femora. A key to the genera of Neohiraseini from Vietnam is given. PMID:24990046

Ho, George Wai-Chun; Liu, Xing-Yue; Bresseel, Joachim; Constant, Jerome

2014-01-01

182

The FunGenES database: a genomics resource for mouse embryonic stem cell differentiation.  

PubMed

Embryonic stem (ES) cells have high self-renewal capacity and the potential to differentiate into a large variety of cell types. To investigate gene networks operating in pluripotent ES cells and their derivatives, the "Functional Genomics in Embryonic Stem Cells" consortium (FunGenES) has analyzed the transcriptome of mouse ES cells in eleven diverse settings representing sixty-seven experimental conditions. To better illustrate gene expression profiles in mouse ES cells, we have organized the results in an interactive database with a number of features and tools. Specifically, we have generated clusters of transcripts that behave the same way under the entire spectrum of the sixty-seven experimental conditions; we have assembled genes in groups according to their time of expression during successive days of ES cell differentiation; we have included expression profiles of specific gene classes such as transcription regulatory factors and Expressed Sequence Tags; transcripts have been arranged in "Expression Waves" and juxtaposed to genes with opposite or complementary expression patterns; we have designed search engines to display the expression profile of any transcript during ES cell differentiation; gene expression data have been organized in animated graphs of KEGG signaling and metabolic pathways; and finally, we have incorporated advanced functional annotations for individual genes or gene clusters of interest and links to microarray and genomic resources. The FunGenES database provides a comprehensive resource for studies into the biology of ES cells. PMID:19727443

Schulz, Herbert; Kolde, Raivo; Adler, Priit; Aksoy, Irène; Anastassiadis, Konstantinos; Bader, Michael; Billon, Nathalie; Boeuf, Hélène; Bourillot, Pierre-Yves; Buchholz, Frank; Dani, Christian; Doss, Michael Xavier; Forrester, Lesley; Gitton, Murielle; Henrique, Domingos; Hescheler, Jürgen; Himmelbauer, Heinz; Hübner, Norbert; Karantzali, Efthimia; Kretsovali, Androniki; Lubitz, Sandra; Pradier, Laurent; Rai, Meena; Reimand, Jüri; Rolletschek, Alexandra; Sachinidis, Agapios; Savatier, Pierre; Stewart, Francis; Storm, Mike P; Trouillas, Marina; Vilo, Jaak; Welham, Melanie J; Winkler, Johannes; Wobus, Anna M; Hatzopoulos, Antonis K

2009-01-01

183

Advanced Technology Development Program for Lithium-Ion Batteries: Gen 2 Performance Evaluation Final Report  

SciTech Connect

The Advanced Technology Development Program has completed performance testing of the second generation of lithium-ion cells (i.e., Gen 2 cells). The 18650-size Gen 2 cells, with a baseline and variant chemistry, were distributed over a matrix consisting of three states-of-charge (SOCs) (60, 80, and 100% SOC), four temperatures (25, 35, 45, and 55°C), and three life tests (calendar-, cycle-, and accelerated-life). The calendar- and accelerated-life cells were clamped at an open-circuit voltage corresponding to the designated SOC and were subjected to a once-per-day pulse profile. The cycle-life cells were continuously pulsed using a profile that was centered around 60% SOC. Life testing was interrupted every four weeks for reference performance tests (RPTs), which were used to quantify changes in cell degradation as a function of aging. The RPTs generally consisted of C1/1 and C1/25 static capacity tests, a low-current hybrid pulse power characterization test, and electrochemical impedance spectroscopy. The rate of cell degradation generally increased with increasing test temperature, and SOC. It was also usually slowest for the calendar-life cells and fastest for the accelerated-life cells. Detailed capacity-, power-, and impedance-based performance results are reported.

Jon P. Christophersen; Ira Bloom; Edward V. Thomas; Kevin L. Gering; Gary L. Henriksen; Vincent S. Battaglia; David Howell

2006-07-01

184

Flight Deck Technologies to Enable NextGen Low Visibility Surface Operations  

NASA Technical Reports Server (NTRS)

Many key capabilities are being identified to enable Next Generation Air Transportation System (NextGen), including the concept of Equivalent Visual Operations (EVO) . replicating the capacity and safety of today.s visual flight rules (VFR) in all-weather conditions. NASA is striving to develop the technologies and knowledge to enable EVO and to extend EVO towards a Better-Than-Visual operational concept. This operational concept envisions an .equivalent visual. paradigm where an electronic means provides sufficient visual references of the external world and other required flight references on flight deck displays that enable Visual Flight Rules (VFR)-like operational tempos while maintaining and improving safety of VFR while using VFR-like procedures in all-weather conditions. The Langley Research Center (LaRC) has recently completed preliminary research on flight deck technologies for low visibility surface operations. The work assessed the potential of enhanced vision and airport moving map displays to achieve equivalent levels of safety and performance to existing low visibility operational requirements. The work has the potential to better enable NextGen by perhaps providing an operational credit for conducting safe low visibility surface operations by use of the flight deck technologies.

Prinzel, Lawrence (Lance) J., III; Arthur, Jarvis (Trey) J.; Kramer, Lynda J.; Norman, Robert M.; Bailey, Randall E.; Jones, Denise R.; Karwac, Jerry R., Jr.; Shelton, Kevin J.; Ellis, Kyle K. E.

2013-01-01

185

PubAngioGen: a database and knowledge for angiogenesis and related diseases.  

PubMed

Angiogenesis is the process of generating new blood vessels based on existing ones, which is involved in many diseases including cancers, cardiovascular diseases and diabetes mellitus. Recently, great efforts have been made to explore the mechanisms of angiogenesis in various diseases and many angiogenic factors have been discovered as therapeutic targets in anti- or pro-angiogenic drug development. However, the resulted information is sparsely distributed and no systematical summarization has been made. In order to integrate these related results and facilitate the researches for the community, we conducted manual text-mining from published literature and built a database named as PubAngioGen (http://www.megabionet.org/aspd/). Our online application displays a comprehensive network for exploring the connection between angiogenesis and diseases at multilevels including protein-protein interaction, drug-target, disease-gene and signaling pathways among various cells and animal models recorded through text-mining. To enlarge the scope of the PubAngioGen application, our database also links to other common resources including STRING, DrugBank and OMIM databases, which will facilitate understanding the underlying molecular mechanisms of angiogenesis and drug development in clinical therapy. PMID:25392416

Li, Peng; Liu, Yongrui; Wang, Huan; He, Yuan; Wang, Xue; He, Yundong; Lv, Fang; Chen, Huaqing; Pang, Xiufeng; Liu, Mingyao; Shi, Tieliu; Yi, Zhengfang

2015-01-28

186

An evaluation of the accuracy of the ORange® (Gen II) by comparing it to the IOLMaster® in the prediction of postoperative refraction  

PubMed Central

Purpose The aim of this study was to evaluate the accuracy of ORange® Gen II (WaveTec Vision, Aliso Viejo, CA). Setting The Surgical Suites, Honolulu, HI. Methods The prospective 28 consecutive cataract surgical cases were selected from 85 cataract surgical cases between December 16, 2010 and February 24, 2011. With the same intraocular lens implantation, the predicted spherical equivalent refraction from IOLMaster® (Carl Zeiss AG, Oberkochen, Germany) and ORange Gen II were statistically compared and verified with 1-month postoperative manifest refraction. The data were put into IBM SPSS 19 (SPSS Inc, Chicago, IL) for analysis of variance. Pearson’s correlation coefficient was also calculated to evaluate the correlation between the IOLMaster, ORange Gen II, and 1-month postoperative manifest refraction. Results There were no statistically significant differences in the mean spherical equivalent refraction from the IOLMaster, ORange Gen II, and 1-month postoperative manifest refraction (IOLMaster ?0.40 diopters, P = 0.07; ORange Gen II ?0.43 diopters, P = 0.16; 1-month refraction ?0.41 diopters, P = 0.07). Pearson’s correlation study demonstrated that all three were positively correlated (P < 0.05), with the strongest correlation between the ORange Gen II and 1-month postoperative manifest refraction (r = +0.6, P < 0.01). Conclusion The ORange Gen II can be considered as an alternative method for intraocular lens selection for cataract patients. PMID:22457590

Chen, Ming

2012-01-01

187

USDA Forest Service Gen. Tech. Rep. PSW-GTR-181. 2002. 823 Effects of Prescribed Fire in Ponderosa  

E-print Network

) in northern Arizona ponderosa pine (Pinus ponderosa) forests. Old-growth ponderosa pine trees are used by 80USDA Forest Service Gen. Tech. Rep. PSW-GTR-181. 2002. 823 Effects of Prescribed Fire in Ponderosa-Parker2 and Richard Miller3 Abstract We monitored the effects of prescribed fire in ponderosa pine forest

Standiford, Richard B.

188

JENUFA GEN. NOV.: A NEW GENUS OF COCCOID GREEN ALGAE (CHLOROPHYCEAE, INCERTAE SEDIS) PREVIOUSLY RECORDED BY ENVIRONMENTAL SEQUENCING1  

E-print Network

JENUFA GEN. NOV.: A NEW GENUS OF COCCOID GREEN ALGAE (CHLOROPHYCEAE, INCERTAE SEDIS) PREVIOUSLY of unicellular green algae from algal biofilms growing on tree bark in a Southeast Asian tropical rainforest: AU, approximately unbiased; BBM, Bold basal medium; CAUP, Culture Collection of algae at Charles

189

321USDA Forest Service Gen.Tech. Rep. PSW-GTR-160. 1997. Effects of Blue Oak Canopy on Annual  

E-print Network

321USDA Forest Service Gen.Tech. Rep. PSW-GTR-160. 1997. Effects of Blue Oak Canopy on Annual was compared at four sites under four blue oak (Quercus douglasii) canopy levels (0, 25, 50, and 75 percent) difference in production among sites. The effects of canopy cover varied from year to year; canopy

Standiford, Richard B.

190

PSeq-Gen: an application for the Monte Carlo simulation of protein sequence evolution along phylogenetic trees  

Microsoft Academic Search

Motivation: Seq-Gen is a program that will simulate the evolution of nucleotide sequences along a phylogeny, using common models of the substitution process. A range of models of molecular evolution are implemented, including the general reversible model. Nucleotide frequencies and other parameters of the model may be given and site-specific rate heterogeneity can also be incorporated in a number of

Andrew Rambaut; J. Adachi

1997-01-01

191

USDA Forest Service Gen. Tech. Rep. PSW-GTR-203. 2007. 41 Stewardship and Fireshed Assessment: A  

E-print Network

USDA Forest Service Gen. Tech. Rep. PSW-GTR-203. 2007. 41 Stewardship and Fireshed Assessment, Pacific Southwest Region, USDA Forest Service. 3 Klaus Barber, Regional Analyst, Pacific Southwest Region, USDA Forest Service. 4 Joseph Sherlock, Assistant Regional Silviculturist, Pacific Southwest Region

Standiford, Richard B.

192

USDA Forest Service Gen. Tech. Rep. PSW-152. 1995. 417 Appendix A--Conservation Assessment Coordinating Group,  

E-print Network

USDA Forest Service Gen. Tech. Rep. PSW-152. 1995. 417 Appendix A--Conservation Assessment, Jr., Pacific Northwest Region, USDA Forest Service, Portland, Oregon Garland N. Mason, Pacific Southwest Research Station, USDA Forest Service, Albany, California Core Team C. John Ralph, Pacific

Standiford, Richard B.

193

293USDA Forest Service Gen. Tech. Rep. RMRS-GTR-114. 2003 Postfire Rehabilitation of the Hayman Fire  

E-print Network

rehabilitation treatments (USDA Forest Service 2002). The BAER team used data from nearby fires, erosion but strong water repellent surface layer, will likely lead to rapid runoff and substantial soil erosion293USDA Forest Service Gen. Tech. Rep. RMRS-GTR-114. 2003 Postfire Rehabilitation of the Hayman

194

USDA Forest Service Gen. Tech. Rep. PSW-GTR-193. 2004. 159 Turning Stumbling Blocks into Stepping Stones  

E-print Network

or transport of water through a watershed and so include impacts arising from changes in hydrology, erosion, inUSDA Forest Service Gen. Tech. Rep. PSW-GTR-193. 2004. 159 Turning Stumbling Blocks into Stepping-stream woody debris, channel form, and water quality. Evaluations of impacts on freshwater biota, flooding

Standiford, Richard B.

195

USDA Forest Service Gen. Tech. Rep. PSW-GTR-203. 2007.306 The Effect of Mechanical Fuel Reduction  

E-print Network

and Steven J. Seybold2 Abstract Selective logging, fire suppression, forest succession, and climatic changes Pacific Southwest Research Station, USDA Forest Service, Davis, CA 95616 USA. 3 Forest Health ProtectionUSDA Forest Service Gen. Tech. Rep. PSW-GTR-203. 2007.306 The Effect of Mechanical Fuel Reduction

Standiford, Richard B.

196

USDA Forest Service Gen. Tech. Rep. PSW-GTR-193. 2004. 167 Biodiversity in the Sierra Nevada1  

E-print Network

forests, alpine meadows, and stream corridors were under full assault from unsustainable levels of logging by climate change--can affect fire regimes and, by extension, forest health. Because water is a limitingUSDA Forest Service Gen. Tech. Rep. PSW-GTR-193. 2004. 167 Biodiversity in the Sierra Nevada1

Standiford, Richard B.

197

USDA Forest Service Gen. Tech. Rep. PSW-GTR-193. 2004. 93 Linking Vegetation Patterns to Potential Smoke  

E-print Network

of current and recent (historical) aerial photographs for the Eastside Forest Health Assessment (HuffUSDA Forest Service Gen. Tech. Rep. PSW-GTR-193. 2004. 93 Linking Vegetation Patterns to Potential, logging, and domestic livestock grazing) have significantly modified the composition and structure

Standiford, Richard B.

198

USDA Forest Service Gen. Tech. Rep. PSW-GTR-193. 2004. 121 Aquatic Systems and Watersheds1  

E-print Network

USDA Forest Service Gen. Tech. Rep. PSW-GTR-193. 2004. 121 Aquatic Systems and Watersheds1 Rick an argument is over logging, roads, wildfire, endangered species, wilderness, sprawl of foothill communities in the health of aquatic ecosystems were particularly apparent from dramatic changes in fish populations: most

Standiford, Richard B.

199

USDA Forest Service Gen. Tech. Rep. PSW-GTR-181. 2002. 111 A Preliminary Study of Ant Diversity and of  

E-print Network

physical and chemical soil properties, plant and animal distribution, and forest health. Some species (eUSDA Forest Service Gen. Tech. Rep. PSW-GTR-181. 2002. 111 A Preliminary Study of Ant Diversity. The nests of three to four species frequently shared logs or stumps. Introduction Ants are known

Lindgren, Staffan

200

Two new species of Pharta Thorell, 1891 with the description of Ibana senagang gen. et sp. nov. (Araneae: Thomisidae).  

PubMed

Two new species of Pharta, P. sudmannorum sp. nov. (??, Borneo) and P. koponeni sp. nov. (?, Thailand) are described. Furthermore, Ibana senagang gen. nov. & sp. nov. from Malaysia is described based on its exceptional palp, which has a reduced, movable conductor and thick-long spines on the distal, ventral surface of the tibia, reminiscent of Epidius Thorell, 1877. PMID:25544630

Benjamin, Suresh P

2014-01-01

201

USDA Forest Service Gen. Tech. Rep. PSW-GTR-181. 2002. 171 The Value of Coarse Woody Debris to  

E-print Network

USDA Forest Service Gen. Tech. Rep. PSW-GTR-181. 2002. 171 The Value of Coarse Woody Debris, and reptiles use coarse woody debris (i.e., standing and downed dead wood) for nesting, roosting, foraging habitat for amphibians and reptiles. Introduction Coarse woody debris, which is defined as standing dead

Standiford, Richard B.

202

USDA Forest Service Gen. Tech. Rep. PSW-GTR-181. 2002. 869 Managing Coarse Woody Debris in British  

E-print Network

USDA Forest Service Gen. Tech. Rep. PSW-GTR-181. 2002. 869 Managing Coarse Woody Debris in British debris (CWD) is recognized as an important component of British Columbia's forest ecosystems linked services provided by coarse woody debris (CWD) is essential to initiate sustainable management

Standiford, Richard B.

203

ExGen 500 is an efficient vector for gene delivery to lung epithelial cells in vitro and in vivo  

Microsoft Academic Search

Nonviral vectors might represent a safe alternative to adenovirus for gene therapy of lung disorders, in particular cystic fibrosis (CF). Cationic lipids have been shown to correct the CF defect both in vitro and in vivo, but more efficient vectors are needed to improve the low gene transfer efficiency. Here, we show that the cationic polymer ExGen 500, a linear

S Ferrari; E Moro; A Pettenazzo; JP Behr; F Zacchello; M Scarpa

1997-01-01

204

76 FR 28973 - Terra-Gen Dixie Valley, LLC; Order on Rehearing and Accepting Tariff Filing, Subject to...  

Federal Register 2010, 2011, 2012, 2013, 2014

...61,228, at P 23 (2005) (citing Central Minnesota Municipal Power Agency, 79 FERC ] 61,260, at 62,127 (1997) and Easton Utilities Commission, 83 FERC ] 61,334, at 62,343 (1998)). Therefore, because Terra-Gen has demonstrated that...

2011-05-19

205

USDA Forest Service Gen. Tech. Rep. PSW-GTR-193. 2004. 115 Forest Stand Structure and Development  

E-print Network

USDA Forest Service Gen. Tech. Rep. PSW-GTR-193. 2004. 115 Forest Stand Structure and Development: Implications for Forest Management1 Kevin L. O'Hara2 A general premise of forest managers is that modern to these disturbances. An understanding of forest stand dynamics is therefore a prerequisite to sound forest management

Standiford, Richard B.

206

USDA Forest Service Gen. Tech. Rep. PSW-GTR-203. 2006. 121 Free Selection: A Silvicultural Option1  

E-print Network

USDA Forest Service Gen. Tech. Rep. PSW-GTR-203. 2006. 121 Free Selection: A Silvicultural Option1 Russell T. Graham,2 Theresa B. Jain,2 and Jonathan Sandquist3 Abstract Forest management objectives to the challenge by supplying silvicultural methods and systems to produce desired stand and forest structures

Standiford, Richard B.

207

Micropsittophagus n. gen., a new feather mite genus (Astigmata: Pterolichidae) from the green pygmy parrot, Micropsitta finschi (Psittaciformes: Psittacidae)  

Microsoft Academic Search

A new feather mite, Micropsittophagus atyeoin. gen., n. sp., belonging to the Psittophagus generic group of the subfamily Pterolichinae (Pterolichoidea: Pterolichidae), is described from the green pygmy parrot, Micropsitta finschi (Ramsay, 1881) (Psittacidae: Psittacinae). This is the first description of a pterolichine from pygmy parrots, the tribe Micropsittini. In comparison to other known genera of the Psittophagus group (Nymphicilichus, Psittaculobius

Serge V. Mironov; Tila M. Perez

2003-01-01

208

USDA Forest Service Gen. Tech. Rep. RMRS-GTR-42-vol. 6. 2008 1 Fire and Nonnative Invasive  

E-print Network

USDA Forest Service Gen. Tech. Rep. RMRS-GTR-42-vol. 6. 2008 1 Chapter 1: Fire and Nonnative and wildland ecosystems. Wildland managers must decide when, where, and for what specific reasons they should on autecological rela- tionships between plants and fire, past fire regimes, and successional patterns for forest

209

139USDA Forest Service Gen. Tech. Rep. PSW-GTR-158. 1995. The Role of Fire in Ecosystem Management1  

E-print Network

139USDA Forest Service Gen. Tech. Rep. PSW-GTR-158. 1995. The Role of Fire in Ecosystem Management1, in part or collectively, changed many forests. However well- meaning at the time, in some ecosystems the role of fire in ecosystem management and it answers these three questions: 1) what is ecosystem manage

Standiford, Richard B.

210

arXiv:submit/0451583[physics.gen-ph]8Apr2012 Including Nuclear Degrees of Freedom in a Lattice  

E-print Network

arXiv:submit/0451583[physics.gen-ph]8Apr2012 Including Nuclear Degrees of Freedom in a Lattice condensed matter and nuclear systems are described initially on the same footing. Since it may be possible that the lattice will respond to the mass change associated with a excited nuclear state, we adopt a relativistic

Williams, Brian C.

211

USDA Forest Service Gen. Tech. Rep. PSW-GTR-181. 2002. 71 Modeling the Delivery of Large Wood to  

E-print Network

USDA Forest Service Gen. Tech. Rep. PSW-GTR-181. 2002. 71 Modeling the Delivery of Large Wood forest structure and predict the delivery of wood to over 55 stream kilometers in a 28-square kilometer = 0.45). The model predicted that 83 percent of wood delivered to streams originated within 20 meters

Standiford, Richard B.

212

USDA Forest Service Gen. Tech. Rep. PSW-GTR-181. 2002. 535 Regional Patterns of Dead Wood in  

E-print Network

USDA Forest Service Gen. Tech. Rep. PSW-GTR-181. 2002. 535 Regional Patterns of Dead Wood regional patterns of variation in dead wood across 20 million ha of upland forests of all ownerships in Oregon and Washington, based on an analysis of data on snags and down wood collected on over 16,000 field

213

204 USDA Forest Service Gen. Tech. Rep. RMRS-GTR-114. 2003 Part 3: Soil Properties, Erosion,  

E-print Network

204 USDA Forest Service Gen. Tech. Rep. RMRS-GTR-114. 2003 Part 3: Soil Properties, Erosion, erosion and sedimentation, and how aquatic and terrestrial ecosystems have responded or could respond erosion/sedimentation events (re- lated to fire or other processes); how did the frequency, extent

214

USDA Forest Service Gen. Tech. Rep. PSW-GTR-198. 2005. 123 Management of Ponderosa Pine Nutrition  

E-print Network

USDA Forest Service Gen. Tech. Rep. PSW-GTR-198. 2005. 123 Management of Ponderosa Pine Nutrition. Lawson) nutrition. Ponderosa pine nitrogen (N) status was often better than the N-status of other Inland) Lindl.), often showed a better growth response to fertilization than ponderosa pine. The nutritional

Standiford, Richard B.

215

Description of Bryantinus gen. n. from Sarawak, and New Distributional Records for Cerochusa cilioceps in Thailand (Coleoptera: Staphylinidae: Pselaphinae)  

PubMed Central

A new genus and species of the subtribe Batrisina from western Sarawak, Bryantinus matangus gen. et sp. n., is described, illustrated, and compared with related taxa. In addition, examination of a small series of batrisine material from Thailand revealed a new country record for Cerochusa cilioceps Yin & Nomura, which was previously known only from the island of Hainan in southern China. PMID:25409318

Yin, Zi-Wei; Li, Li-Zhen

2014-01-01

216

Marine cyanobacteria --tiny ocean plants that produce oxy-gen and make organic carbon using sunlight and carbon di-  

E-print Network

PROBLEM Marine cyanobacteria -- tiny ocean plants that produce oxy- gen and make organic carbon with wild strains of the cyanobacteria, and used metagenomic analysis to gain more information about in marine ecosys- tems and as such, could add to our understanding of the im- portance of cyanobacteria

Entekhabi, Dara

217

Gen Green: Changes in Australian Apprentices' and Trainees' Experience of Skills and Sustainability from 2008 to 2011  

ERIC Educational Resources Information Center

The Gen Green research in 2008 and 2011 indicates that skills for sustainability public policy and business initiatives are having an impact, but that young skilled Australians' high level of interest in sustainability skills is confounded by a lack of guidance and incentives from employers, the market and educators. The research indicates that,…

Sack, Fabian

2012-01-01

218

YouGenMap: a web platform for dynamic multi-comparative mapping and visualization of genetic maps  

PubMed Central

Comparative genetic maps are used in examination of genome organization, detection of conserved gene order, and exploration of marker order variations. YouGenMap is an open-source web tool that offers dynamic comparative mapping capability of users' own genetic mapping between 2 or more map sets. Users' genetic map data and optional gene annotations are uploaded, either publically or privately, as long as they follow our template which is available in several standard file formats. Data is parsed and loaded into MySQL relational database to be displayed and compared against users' genetic maps or other public data available on YouGenMap. With the highly interactive GUIs, all public data on YouGenMap are maps available for visualization, comparison, search, filtration and download. YouGenMap web tool is available on the website (http://conifergdb.miamioh.edu/yougenmap) with the source-code repository at (http://sourceforge.net/projects/yougenmap/?source=directory). PMID:25009553

Batesole, Keith; Wimalanathan, Kokulapalan; Liu, Lin; Zhang, Fan; Echt, Craig S.; Liang, Chun

2014-01-01

219

Array-CGH profiling We used human Integrachip V2 to establish genomic profiles (IntegraGen SA, Evry.  

E-print Network

Array-CGH profiling We used human Integrachip V2 to establish genomic profiles (IntegraGen SA, Evry provides preblocked slides. Genomic DNA (300 ng) was labeled by random-priming in a 45µl reaction of the labeled DNA is checked using a spectrophotometer and incorporation of dyes is calculated. A mix of 700

Paris-Sud XI, Université de

220

Morphology and phylogenetic relationships of the neotenic interstitial polychaete Apodotrocha progenerans n.gen., n.sp. (Annelida)  

Microsoft Academic Search

Apodotrocha progenerans n.gen., n.sp. from tidal beaches or shallow waters on the east coast of the USA (Massachusetts) is a gonochoristic interstitial polychaete (length ca. 600 µm; six trunk segments), that lacks parapods, setae, and fleshy appendages, but has three characteristic caudal cirri. The habitus greatly resembles a larval stage of the Dorvilleidae, a family with which it also shares

W. Westheide; N. W. Riser

1983-01-01

221

Redesigning Services for the Net-Gen and Beyond: A Holistic Review of Pedagogy, Resource, and Learning Space  

Microsoft Academic Search

Oblinger and Oblinger (2005) described the Net Generation or Net Gen, who have never known life without the Internet. They note the incremental nature of change: “One generation's technology is taken for granted by the next” (p. 2.1). In a world increasingly dominated by technology, the academic library has become a place to learn that is constantly adapting and changing,

Jill Beard; Penny Dale

2008-01-01

222

OmniGen-AF supplementation modulated the physiological and acute phase responses of Brahman heifers to an endotoxin challenge  

Technology Transfer Automated Retrieval System (TEKTRAN)

This study examined the effect of feeding OmniGen-AF (OG; Prince Agri Products) on the physiological and acute phase responses (APR) of newly-weaned heifers to an endotoxin (lipopolysaccharide; LPS) challenge. Brahman heifers (n=24; 183±5 kilograms) from the Texas AgriLife Research Center in Overton...

223

Tenth USA/Europe Air Traffic Management Research and Development Seminar (ATM2013) Assuring Safety of NextGen Procedures  

E-print Network

an innovative approach to analyzing safety in the next generation of air traffic management systemsTenth USA/Europe Air Traffic Management Research and Development Seminar (ATM2013) Assuring Safety of NextGen Procedures Cody H. Fleming, Nancy G. Leveson, M. Seth Placke System Safety Research Lab

Leveson, Nancy

224

Evaluation of Mixed-Mode Data-Link Communications for NextGen 4DT and Equivalent Visual Surface Operations  

NASA Technical Reports Server (NTRS)

By 2025, U.S. air traffic is predicted to increase 3-fold and may strain the current air traffic management system, which may not be able to accommodate this growth. In response to this challenge, a revolutionary new concept has been proposed for U.S. aviation operations, termed the Next Generation Air Transportation System or NextGen. Many key capabilities are being identified to enable NextGen, including the use of data-link communications. Because NextGen represents a radically different approach to air traffic management and requires a dramatic shift in the tasks, roles, and responsibilities for the flight deck, there are numerous research issues and challenges that must be overcome to ensure a safe, sustainable air transportation system. Flight deck display and crew-vehicle interaction concepts are being developed that proactively investigate and overcome potential technology and safety barriers that might otherwise constrain the full realization of NextGen. The paper describes simulation research examining data-link communications during 4DT and equivalent visual surface operations.

Prinzel, Lawrence J., III; Shelton, Kevin J.; Jones, Denise R.; Allamandola, Angela S.; Arthur, Jarvis, J., III; Bailey, Randall E.

2010-01-01

225

USDA Forest Service Gen. Tech. Rep. PSW-GTR-181. 2002. 369 Assemblages of Vascular Plants on Logs  

E-print Network

USDA Forest Service Gen. Tech. Rep. PSW-GTR-181. 2002. 369 Assemblages of Vascular Plants on Logs and wildfire stands. Logs and stumps were colonized by a significantly different assemblage of vascular plants were similar. However, as dead wood decayed, assemblages of vascular plants diverged and became more

Standiford, Richard B.

226

Abyssotrema pritchardae gen. et sp. n. (Digenea: Fellodistomidae) from the deep-sea fish, Alepocephalus agassizi Goode and Bean 1883.  

PubMed

Abyssotrema pritchardae gen. et sp. n. is described from the benthic teleost, Alepocephalus agassizi Goode and Bean 1883 (Alepocephalidae), taken from Hudson Canyon in the western North Atlantic. The new genus is placed in the subfamily Monascinae Dollfus 1947 and relationships among Abyssotrema, Elopsium Fischthal and Thomas 1972, and Monascus Looss 1907 are discussed. PMID:1165549

Campbell, R A

1975-08-01

227

USDA Forest Service Gen. Tech. Rep. PSW-GTR-193. 2004. 127 Non-Native Fish Introductions and the  

E-print Network

a likely cause of the decline of the mountain yellow-legged frog, Rana muscosa (R. muscosa.) Due Forest Service Gen. Tech. Rep. PSW-GTR-193. 2004.128 State of the Science Background Mountain yellow-legged. The most imperiled species were the true frogs (Rana sp.) and true toads (Bufo sp.), several of which

Standiford, Richard B.

228

65USDA Forest Service Gen. Tech. Rep. PSW-GTR-160. 1997. Soil Characteristics of Blue Oak and  

E-print Network

65USDA Forest Service Gen. Tech. Rep. PSW-GTR-160. 1997. Soil Characteristics of Blue Oak and Coast Live Oak Ecosystems1 Denise E. Downie2 Ronald D. Taskey2 Abstract: In northern San Luis Obispo County, California, soils associated with blue oaks (Quercus douglasii) are slightly more acidic, have finer textures

Standiford, Richard B.

229

91USDA Forest Service Gen. Tech. Rep. PSW-GTR-160. 1997. Rooting Responses of Three Oak  

E-print Network

91USDA Forest Service Gen. Tech. Rep. PSW-GTR-160. 1997. Rooting Responses of Three Oak Species Abstract: Rooting characteristics were compared in blue (Q. douglasii), valley (Q. lobata), and cork oak (Q oak formed few lateral roots regardless of oxygen level, but valley and cork oak root production

Standiford, Richard B.

230

USDA Forest Service Gen. Tech. Rep. PSW-GTR-203. 2007. 303 Thinning and Underburning Effects on  

E-print Network

USDA Forest Service Gen. Tech. Rep. PSW-GTR-203. 2007. 303 Thinning and Underburning Effects.W. Miller,2 and D.W. Johnson2 Abstract Thinning utilizing cut-to-length and whole-tree harvesting systems/codominant crown class trees clearly demonstrated a thinning effect, with cut-to-length and whole-tree subunits

Standiford, Richard B.

231

Measurement of the neutron's electric form factor G(E)(n) via doubly polarized, quasi-elastic scattering at Jefferson Lab  

SciTech Connect

We determined the electric form factor of the neutron GEn via the reaction d(e,e?n)p using a longitudinally polarized electron beam and a frozen, polarized 15ND3 target at Jefferson Lab. The knocked out neutrons were detected in a segmented plastic scintillator in coincidence with the quasi-elastically scattered electrons which were tracked in Hall C's High Momentum Spectrometer. To extract GEn, we compared the experimental beam-target asymmetry with theoretical calculations based on different GEn models. We report the results of the fall 2001 run at Q2=0.5 and 1.0 (GeV/c)2.

Frank Wesselmann

2004-11-01

232

Life cycle of Schizochytriodinium calani nov. gen. nov. spec., a dinoflagellate parasitizing copepod eggs  

NASA Astrophysics Data System (ADS)

During the Polarstern-cruise ARK IV/2 June 1987, in the Fram Strait, dinophytes parasitizing copepod eggs were observed. In the laboratory on board, vegetative reproduction was documented and re-infection of Calanus glacialis and C. hyperboreus eggs was experimentally established. During food uptake, a primary cyst produces successively several secondary cysts, all separating immediately after formation from the primary cyst. In every one of these free floating secondary cysts up to 256 dinospores are formed by palintomy. Re-infection only occurred after a “maturation time” of at least 2 days after formation of the dinospores. The life cycle is compared to that of other similar parasitic dinophyte genera: Apodinium Chatton, Chytriodinium Chatton, Dissodinium Klebs in Pascher and Myxodinium Cachon, Cachon & Bouquaheux. As the taxon under discussion does not fit in with any species or genus known so far, it is described as Schizochytriodinium calani nov. gen. nov. spec.

Elbrächter, Malte

1988-09-01

233

Microstructure stability of candidate stainless steels for Gen-IV SCWR fuel cladding application  

NASA Astrophysics Data System (ADS)

In the past few years, significant progress has been made in materials selection for Gen-IV SCWR fuel cladding applications. Current studies indicate that austenite stainless steels such as 310H are promising candidates for in-core applications. Alloys in this group are promising for their corrosion resistance, SCC resistance, high temperature mechanical properties and creep resistance at temperatures up to 700 °C. However, one under-studied area of this alloy is the long-term microstructure stability under the proposed reactor operating condition. Unstable microstructure not only results in embrittlement but also has the potential to reduce their resistance to corrosion or stress-corrosion cracking. In this study, stainless steels 310H and 304H were tested for their SCWR corrosion resistance and microstructure stability.

Li, Jian; Zheng, W.; Penttilä, S.; Liu, P.; Woo, O. T.; Guzonas, D.

2014-11-01

234

Application of constitutive model considering nonlinear unloading behavior for Gen.3 AHSS  

NASA Astrophysics Data System (ADS)

Nonlinear unloading behavior has been reported as an important factor for accurate springback prediction. In this study, a newly proposed special component of strain: "Quasi-Plastic-Elastic" ("QPE") strain was utilized to study the springback behavior of Advanced High Strength Steels (AHSS). Several types of steels, including IF steel, DP780, TRIP780, DP980, TWIP980 and QP980 were considered in this research. The results showed that all the tested steels have following behavior: 1) QPE strain is recoverable, like elastic deformation. 2) It dissipates work, like plastic deformation. A 3-D constitutive model considering QPE behavior was implemented in Abaqus/Standard with shell element and applied to draw-bend springback test for Gen. 3 AHSS, QP980. Predictions for springback using the QPE model were more accurate compared with standard elastic-plastic models.

Sun, Li; Wagoner, R. H.

2013-05-01

235

Enhanced Vision for All-Weather Operations Under NextGen  

NASA Technical Reports Server (NTRS)

Recent research in Synthetic/Enhanced Vision technology is analyzed with respect to existing Category II/III performance and certification guidance. The goal is to start the development of performance-based vision systems technology requirements to support future all-weather operations and the NextGen goal of Equivalent Visual Operations. This work shows that existing criteria to operate in Category III weather and visibility are not directly applicable since, unlike today, the primary reference for maneuvering the airplane is based on what the pilot sees visually through the "vision system." New criteria are consequently needed. Several possible criteria are discussed, but more importantly, the factors associated with landing system performance using automatic and manual landings are delineated.

Bailey, Randall E.; Kramer, Lynda J.; Williams, Steven P.; Bailey, Randall E.; Kramer, Lynda J.; Williams, Steven P.

2010-01-01

236

IceCube-Gen2: A Vision for the Future of Neutrino Astronomy in Antarctica  

E-print Network

The recent observation by the IceCube neutrino observatory of an astrophysical flux of neutrinos represents the "first light" in the nascent field of neutrino astronomy. The observed diffuse neutrino flux seems to suggest a much larger level of hadronic activity in the non-thermal universe than previously thought and suggests a rich discovery potential for a larger neutrino observatory. This document presents a vision for an substantial expansion of the current IceCube detector, IceCube-Gen2, including the aim of instrumenting a $10\\,\\mathrm{km}^3$ volume of clear glacial ice at the South Pole to deliver substantial increases in the astrophysical neutrino sample for all flavors. A detector of this size would have a rich physics program with the goal to resolve the sources of these astrophysical neutrinos, discover GZK neutrinos, and be a leading observatory in future multi-messenger astronomy programs.

IceCube-Gen2 Collaboration; :; M. G. Aartsen; M. Ackermann; J. Adams; J. A. Aguilar; M. Ahlers; M. Ahrens; D. Altmann; T. Anderson; G. Anton; C. Arguelles; T. C. Arlen; J. Auffenberg; S. Axani; X. Bai; I. Bartos; S. W. Barwick; V. Baum; R. Bay; J. J. Beatty; J. Becker Tjus; K. -H. Becker; S. BenZvi; P. Berghaus; D. Berley; E. Bernardini; A. Bernhard; D. Z. Besson; G. Binder; D. Bindig; M. Bissok; E. Blaufuss; J. Blumenthal; D. J. Boersma; C. Bohm; F. Bos; D. Bose; S. Böser; O. Botner; L. Brayeur; H. -P. Bretz; A. M. Brown; N. Buzinsky; J. Casey; M. Casier; E. Cheung; D. Chirkin; A. Christov; B. Christy; K. Clark; L. Classen; F. Clevermann; S. Coenders; G. H. Collin; J. M. Conrad; D. F. Cowen; A. H. Cruz Silva; J. Daughhetee; J. C. Davis; M. Day; J. P. A. M. de André; C. De Clercq; S. De Ridder; P. Desiati; K. D. de Vries; M. de With; T. DeYoung; J. C. Dí andaz-Vélez; M. Dunkman; R. Eagan; B. Eberhardt; T. Ehrhardt; B. Eichmann; J. Eisch; S. Euler; J. J. Evans; P. A. Evenson; O. Fadiran; A. R. Fazely; A. Fedynitch; J. Feintzeig; J. Felde; K. Filimonov; C. Finley; T. Fischer-Wasels; S. Flis; K. Frantzen; T. Fuchs; T. K. Gaisser; R. Gaior; J. Gallagher; L. Gerhardt; D. Gier; L. Gladstone; T. Glüsenkamp; A. Goldschmidt; G. Golup; J. G. Gonzalez; J. A. Goodman; D. Góra; D. Grant; P. Gretskov; J. C. Groh; A. Groß; C. Ha; C. Haack; A. Haj Ismail; P. Hallen; A. Hallgren; F. Halzen; K. Hanson; J. Haugen; D. Hebecker; D. Heereman; D. Heinen; K. Helbing; R. Hellauer; D. Hellwig; S. Hickford; J. Hignight; G. C. Hill; K. D. Hoffman; R. Hoffmann; A. Homeier; K. Hoshina; F. Huang; W. Huelsnitz; P. O. Hulth; K. Hultqvist; A. Ishihara; E. Jacobi; J. Jacobsen; G. S. Japaridze; K. Jero; O. Jlelati; B. J. P. Jones; M. Jurkovic; O. Kalekin; A. Kappes; T. Karg; A. Karle; T. Katori; U. F. Katz; M. Kauer; A. Keivani; J. L. Kelley; A. Kheirandish; J. Kiryluk; J. Kläs; S. R. Klein; J. -H. Köhne; G. Kohnen; H. Kolanoski; A. Koob; L. Köpke; C. Kopper; S. Kopper; D. J. Koskinen; M. Kowalski; C. B. Krauss; A. Kriesten; K. Krings; G. Kroll; M. Kroll; J. Kunnen; N. Kurahashi; T. Kuwabara; M. Labare; J. L. Lanfranchi; D. T. Larsen; M. J. Larson; M. Lesiak-Bzdak; M. Leuermann; J. LoSecco; J. Lünemann; J. Madsen; G. Maggi; K. B. M. Mahn; S. Marka; Z. Marka; R. Maruyama; K. Mase; H. S. Matis; R. Maunu; F. McNally; K. Meagher; M. Medici; A. Meli; T. Meures; S. Miarecki; E. Middell; E. Middlemas; N. Milke; J. Miller; L. Mohrmann; T. Montaruli; R. W. Moore; R. Morse; R. Nahnhauer; U. Naumann; H. Niederhausen; S. C. Nowicki; D. R. Nygren; A. Obertacke; S. Odrowski; A. Olivas; A. Omairat; A. O'Murchadha; T. Palczewski; L. Paul; Ö. Penek; J. A. Pepper; C. Pérez de los Heros; C. Pfendner; D. Pieloth; E. Pinat; J. L. Pinfold; J. Posselt; P. B. Price; G. T. Przybylski; J. Pütz; M. Quinnan; L. Rädel; M. Rameez; K. Rawlins; P. Redl; I. Rees; R. Reimann; M. Relich; E. Resconi; W. Rhode; M. Richman; B. Riedel; S. Robertson; J. P. Rodrigues; M. Rongen; C. Rott; T. Ruhe; B. Ruzybayev; D. Ryckbosch; S. M. Saba; H. -G. Sander; J. Sandroos; P. Sandstrom; M. Santander; S. Sarkar; K. Schatto; F. Scheriau; T. Schmidt; M. Schmitz; S. Schoenen; S. Schöneberg; A. Schönwald; A. Schukraft; L. Schulte; O. Schulz; D. Seckel; Y. Sestayo; S. Seunarine; M. H. Shaevitz; R. Shanidze; M. W. E. Smith; D. Soldin; S. Söldner-Rembold; G. M. Spiczak; C. Spiering; M. Stamatikos; T. Stanev; N. A. Stanisha; A. Stasik; T. Stezelberger; R. G. Stokstad; A. Stöß andl; E. A. Strahler; R. Ström; N. L. Strotjohann; G. W. Sullivan; H. Taavola; I. Taboada; A. Taketa; A. Tamburro; H. K. M. Tanaka; A. Tepe; S. Ter-Antonyan; A. Terliuk; G. Teš; andi?; S. Tilav; P. A. Toale; M. N. Tobin; D. Tosi; M. Tselengidou; E. Unger; M. Usner; S. Vallecorsa; N. van Eijndhoven; J. Vandenbroucke; J. van Santen; S. Vanheule; M. Vehring; M. Voge; M. Vraeghe; C. Walck; M. Wallraff; Ch. Weaver; M. Wellons; C. Wendt; S. Westerhoff; B. J. Whelan; N. Whitehorn; C. Wichary; K. Wiebe; C. H. Wiebusch; D. R. Williams; H. Wissing; M. Wolf; T. R. Wood; K. Woschnagg; S. Wren; D. L. Xu; X. W. Xu; Y. Xu; J. P. Yanez; G. Yodh; S. Yoshida; P. Zarzhitsky; J. Ziemann; M. Zoll

2014-12-16

237

Sandrewia, n. gen., a problematical plant from the Lower Permian of Texas and Kansas  

USGS Publications Warehouse

Sandrewia, n. gen., monotypified by S. texana, n. sp., is a plant from Lower Permian beds of north-central Texas and east-central Kansas. It is characterized by stout axes with spirally disposed, laxly inserted, petiolate leaves; the laminae are broadly flabelliform with coarse, open venation. The leaves are reminiscent of the vojnovskyalean Nephropsis, of the Permian Petchora Basin, U.S.S.R., but biologic relationships are only speculative because of limited material. However, leaf characteristics render Sandrewia easily identifiable. Its presently limited stratigraphic range, along with floristic associations, indicates it may be a useful guide fossil and supports the author's beliefs regarding important times and places in Paleozoic plant evolution. ?? 1975.

Mamay, S.H.

1975-01-01

238

Combresomyces cornifer gen. sp. nov., an endophytic peronosporomycete in Lepidodendron from the Carboniferous of central France.  

PubMed

Structurally preserved periderm of the lycophyte Lepidodendron rhodumnense from the Visean (Mississippian) of central France contains a peronosporomycete (Combresomyces cornifer gen. sp. nov.) that occurs in the form of pyriform to subglobose terminal oogonia. On the surface is a conspicuous ornamentation, which may have formed through condensation of a mucilaginous extra-oogonial wall secretion. Some oogonia contain thin-walled spherules, which may represent (walled) oospheres or spores of an endoparasitic fungus (?chytrid), whereas single, large spheres in the interior are interpreted as oospores. Antheridia adpressed to several of the specimens are clavate and paragynous. This discovery sheds light on the morphology and biology of peronosporomycetes in a terrestrial ecosystem some 330My ago. Although the organism occurs exclusively in the periderm of L. rhodumnense, it is not known whether it represents a symptomless endophyte, pathogen, or saprotroph. PMID:18692373

Dotzler, Nora; Krings, Michael; Agerer, Reinhard; Galtier, Jean; Taylor, Thomas N

2008-09-01

239

Eremonidiopsis aggregata, gen. n., sp. n. from Cuba, the third West Indian Dioptinae (Lepidoptera, Notodontidae)  

PubMed Central

Abstract A new genus and species of Dioptinae (Lepidoptera, Noctuoidea, Notodontidae) is described from Cuba, this being the third taxon of the subfamily known from the West Indies. Eremonidiopsis aggregata, gen. n., sp. n., appears to be closely related to Eremonidia mirifica Rawlins & Miller from Hispaniola among members of the tribe Dioptini. Eremonidiopsis aggregata is known from two localities in the middle and western portions of the northeastern Cuban mountain range, Nipe–Sagua–Baracoa. The species inhabits low elevations (300–400 m) covered by lowland rainforest and sclerophyll rainforest. The six known specimens, all males, were part of small swarms flying near the top of an unidentified tree during the day at both collecting sites. These localities are included within protected areas, the “Pico Cristal” National Park in the West and the “Alexander von Humbolt” National Park in the East. PMID:24146561

Aguila, Rayner Núñez

2013-01-01

240

Mrakiella cryoconiti gen. nov., sp. nov., a psychrophilic, anamorphic, basidiomycetous yeast from alpine and arctic habitats.  

PubMed

A novel psychrophilic basidiomycetous species is described in a new anamorphic genus as Mrakiella cryoconiti gen. nov., sp. nov.; the type strain of Mrakiella cryoconiti is strain A15(T) (=CBS 10834(T) =DSM 21094(T)). Two representatives were isolated from alpine glacier cryoconite and from northern Siberian sediment. Physiological and biochemical properties are similar to characteristics shared by members of the genus Mrakia, although sexual reproduction is absent. Mrakiella cryoconiti strains are psychrophilic and produce cold-active pectate lyase. Sequence analyses of the ITS and 26S rRNA D1/D2 regions indicated that these strains represent a distinct taxon within the Mrakia clade of the order Cystofilobasidiales, class Tremellomycetes and phylum Basidiomycota. On the basis of phenotypic and genotypic characteristics, Cryptococcus aquaticus (a member of the Mrakia clade) is transferred to the newly described genus as Mrakiella aquatica comb. nov. PMID:19060092

Margesin, Rosa; Fell, Jack W

2008-12-01

241

Macuahuitloides inexpectans n. gen., n. sp. (Molineidae: Anoplostrongylinae) from Mormoops megalophylla (Chiroptera: Mormoopidae).  

PubMed

Macuahuitloides inexpectans n. gen., n. sp. (Molineidae: Anoplostrongylinae) is herein described. The description is based on specimens removed from the small intestine of ghost-faced bats, Mormoops megalophylla, from central Mexico. The monotypic genus is unique in featuring sexual dimorphism on the cuticular ornamentation, which consists of the presence of spines on the anterior quarter of females, and of the presence of rugosities on the surface of the cephalic vesicle of males. The cuticular spines are arranged in spiral rings on the anterior quarter of the body, and there is no trace of said structures on the cuticle of males. The synlophe of the males possess 12 ridges, whereas there is no synlophe in females. Finally, females show a prominent caudal terminus (spine) and 3 subterminal tubercles, whereas males show bursal rays in a 3-2 arrangement, with a relatively prominent dorsal ray. PMID:24919089

Jiménez, F Agustín; Peralta-Rodríguez, Jorge Luis; Caspeta-Mandujano, Juan; Ramírez-Díaz, Silvia Edith

2014-10-01

242

Preliminary Considerations of Modified 9Cr-1Mo Steel for Gen IV Nuclear Reactor Application  

SciTech Connect

Modified 9Cr-1Mo steel is currently identified as one of the leading candidate materials in the down selection for construction of the Gen IV nuclear reactor pressure vessel. Because of the stringent requirements in strength, size, safety, design life, and maintenance for the intended nuclear application, qualification of the material demands scrutiny in various aspects such as mechanical properties, data sufficiency, Codification, mechanical behavior modeling, metallurgical stability, environmental resistance, component manufacturability and transportation. In the present paper, history of the material development is briefly reviewed; requirements and challenges for the intended application are discussed; available information on the material is described. Further research and development activities are suggested to facilitate the materials selection.

Ren, Weiju [ORNL

2008-01-01

243

NASA System-Level Design, Analysis and Simulation Tools Research on NextGen  

NASA Technical Reports Server (NTRS)

A review of the research accomplished in 2009 in the System-Level Design, Analysis and Simulation Tools (SLDAST) of the NASA's Airspace Systems Program is presented. This research thrust focuses on the integrated system-level assessment of component level innovations, concepts and technologies of the Next Generation Air Traffic System (NextGen) under research in the ASP program to enable the development of revolutionary improvements and modernization of the National Airspace System. The review includes the accomplishments on baseline research and the advancements on design studies and system-level assessment, including the cluster analysis as an annualization standard of the air traffic in the U.S. National Airspace, and the ACES-Air MIDAS integration for human-in-the-loop analyzes within the NAS air traffic simulation.

Bardina, Jorge

2011-01-01

244

MolliGen, a database dedicated to the comparative genomics of Mollicutes.  

PubMed

Bacteria belonging to the class Mollicutes were among the first ones to be selected for complete genome sequencing because of the minimal size of their genomes and their pathogenicity for humans and a broad range of animals and plants. At this time six genome sequences have been publicly released (Mycoplasma genitalium, Mycoplasma pneumoniae, Ureaplasma urealyticum-parvum, Mycoplasma pulmonis, Mycoplasma penetrans and Mycoplasma gallisepticum) and as the number of available mollicute genomes increases, comparative genomics analysis within this model group of organisms becomes more and more instructive. However, such an analysis is difficult to carry out without a suitable platform gathering not only the original annotations but also relevant information available in public databases or obtained by applying common bioinformatics methods. With the aim of solving these difficulties, we have developed a web-accessible database named MolliGen (http://cbi.labri.fr/outils/molligen/). After selecting a set of genomes the user can launch various types of search based on annotation, position on the chromosomes or sequence similarity. In addition, relationships of putative orthology have been precomputed to allow differential genome queries. The results are presented in table format with multiple links to public databases and to bioinformatic analyses such as multiple alignments or BLAST search. Specific tools were also developed for the graphical visualization of the results, including a multi- genome browser for displaying dynamic pictures with clickable objects and for viewing relationships of precomputed similarity. MolliGen is designed to integrate all the complete genomes of mollicutes as they become available. PMID:14681420

Barré, Aurélien; de Daruvar, Antoine; Blanchard, Alain

2004-01-01

245

Parablastomonas arctica gen. nov., sp. nov., isolated from high Arctic glacial till.  

PubMed

A pale yellow, aerobic bacterium, strain M0-2(T), was isolated from a till sample. Its taxonomic position was investigated by using a polyphasic approach. Cells were Gram-stain-negative, rod-shaped and motile. Cells reproduced by budding or asymmetrical cell division. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain M0-2(T) belonged to the family Sphingomonadaceae and was closely related to species of the genera Novosphingobium (96.4-92.0?%) and Blastomonas (94.6?%), Sphingopyxis witflariensis W-50(T) (94.0?%), Sphingosinicella soli KSL-125(T) (93.6?%) and Sphingomonas astaxanthinifaciens TDMA-17(T) (93.5?%). Ubiquinone-10 (Q-10) was the predominant respiratory quinone. The major fatty acids were summed feature 8 (comprising C18?:?1?7c and/or C18?:?1?6c, 31.9?%), summed feature 3 (comprising C16?:?1?7c and/or C16?:?1?6c, 19.8?%) and C14?:?0 2-OH (8.9?%). Sphingoglycolipid, phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylglycerol and phosphatidylcholine were the major polar lipids. Spermidine was the major polyamine observed in the cell. The genomic DNA G+C content was 47.5 mol%. On the basis of phylogenetic relationships and the low DNA G+C content compared with most other genera of the family Sphingomonadaceae, combined with phenotypic and chemotaxonomic data, strain M0-2(T) is considered to represent a novel species in a new genus in the family Sphingomonadaceae for which the name Parablastomonas arctica gen. nov., sp. nov. is proposed. The type strain of Parablastomonas arctica gen. nov., sp. nov. is M0-2(T) (?=?CCTCC AB 2012968(T)?=?NRRL B-59110(T)). PMID:25336722

Ren, Lvzhi; Chang, Xulu; Jiang, Fan; Kan, Wenjing; Qu, Zhihao; Qiu, Xia; Fang, Chengxiang; Peng, Fang

2015-01-01

246

Aggregicoccus edonensis gen. nov., sp. nov., an unusually aggregating myxobacterium isolated from a soil sample.  

PubMed

ABSTRACT A novel myxobacterium MCy1366T (Ar1733) was isolated in 1981 from a soil sample collected from a region near Tokyo, Japan. It displayed general myxobacterial features like Gram negative staining, rod shaped vegetative cells, gliding on solid surfaces, microbial lytic activity, fruiting body-like aggregates and myxospore-like structures. The strain was mesophilic, aerobic and showed chemoheterotrophic mode of nutrition. It was resistant to many antibiotics like cephalosporin C, kanamycin, gentamycin, hygromycin B, polymyxin and bacitracin and the key fatty acids of whole cell hydrolysates were iso-C15:0, iso-C17:0, and iso-C17:0 2-OH. The genomic G+C content of the novel strain is 65.6 mol%. The 16S rRNA gene sequence showed highest similarity (97.60%) to "Stigmatella koreensis" strain KYC-1019 (not validly described taxon, GenBank accession no. EF112185). The phylogenetic analysis based on 16S rRNA gene sequences and MALDI-TOF data revealed a novel branch in the family Myxococcaceae. DNA-DNA hybridization showed only 28% similarity between the novel strain and the closest species, Corallococcus exiguus DSM 14696T (97% 16S rRNA gene sequence similarity). A recent isolate from a Switzerland soil sample and designated reference strain, MCy10622 displayed 99.9% 16S rRNA gene similarity and showed almost the same characteristics with MCy1366T. Since some morphological features like fruiting body like aggregates were barely reproducible in the type strain, the newly isolated strain MCy10622 was also intensively studied. On the basis of a comprehensive taxonomic study, we propose a novel genus and species, Aggregicoccus edonensis gen. nov., sp. nov., for strain MCy1366T and MCy10622. The type strain for the genus Aggregicoccus is MCy1366T (=DSM 27872T =NCCB 100468T). PMID:24591423

Sood, Sakshi; Awal, Ram Prasad; Wink, Joachim; Mohr, Kathrin Irene; Rohde, Manfred; Stadler, Marc; Kämpfer, Peter; Glaeser, Stefanie; Schumann, Peter; Garcia, Ronald; Müller, Rolf

2014-03-01

247

Tucunarella n. Gen. and other dactylogyrids (Monogenoidea) from cichlid fish (Perciformes) from Peruvian Amazonia.  

PubMed

During parasitological research on cichlid fish from the tributaries of the Amazon River around Iquitos, Peru, the following gill monogenoidean species were found: Tucunarella cichlae n. gen. and n. sp. from Cichla monoculus Spix and Agassiz; Gussevia alioides Kritsky, Thatcher, and Boeger, 1986 from Heros severus Heckel; Gussevia asota Kritsky, Thatcher, and Boeger, 1989 from Astronotus ocellatus (Agassiz); Gussevia disparoides Kritsky, Thatcher, and Boeger, 1986 from H. severus (all new geographical records) and Cichlasoma amazonarum Kullander (new host record); Gussevia longihaptor (Mizelle and Kritsky, 1969) Kritsky, Thatcher, and Boeger, 1986 and Gussevia undulata Kritsky, Thatcher, and Boeger, 1986 from C. monoculus ; Sciadicleithrum satanopercae Yamada, Takemoto, Bellay, and Pavanelli, 2008 from Satanoperca jurupari Heckel; and Sciadicleithrum variabilum (Mizelle and Kritsky, 1969) Kritsky, Thatcher, and Boeger, 1989 from C. amazonarum (new host and geographical records). Tucunarella n. gen. is proposed to accommodate a new species, Tucunarella cichlae , which is its type and only known species in the genus. The new genus is characterized by, besides a very large body size (about 1.5 mm vs. much less than 1 mm in other ancyrocephaline genera in Amazonia), a thickened tegument, 1 pair of eyes, overlapping gonads (testis dorsal to the germarium), nonarticulated male copulatory organ (MCO) and accessory piece, a coiled (counterclockwise) MCO, a dextral vaginal aperture, a haptor armed with 2 pairs of anchors (each with broad base and subequal roots, which are marginally folded), and dorsal and ventral bars and 14 hooks with protruding blunt thumbs and 2 different shapes (slender vs. slightly expanded shanks). Illustrations and data on morphological and biometric variability of individual species from different hosts are provided. The present data provide evidence of a relatively wide host specificity of gill monogenoideans parasitic in South American cichlids. PMID:20557192

Mendoza-Franco, Edgar F; Scholz, T; Rozkosná, P

2010-06-01

248

Pseudochelatococcus lubricantis gen. nov., sp. nov. and Pseudochelatococcus contaminans sp. nov. from coolant lubricants.  

PubMed

Two Gram-negative, rod-shaped, non-spore-forming bacteria, isolated from metal working fluids were investigated to determine their taxonomic positions. On the basis of 16S rRNA gene sequence phylogeny, both strains (MPA 1113(T) and MPA 1105(T)) formed a distinct cluster with 97.7?% sequence similarity between them, which was in the vicinity of members of the genera Methylobacterium, Camelimonas, Chelatococcus, Bosea, Salinarimonas and Microvirga to which they showed low sequence similarities (below 94?%). The predominant compounds in the polyamine pattern and in the quinone system of the two strains were spermidine and ubiquinone Q-10, respectively. The polar lipid profiles were composed of the major compounds: phosphatidylmonomethylethanolamine, phosphatidylglycerol, phosphatidylcholine, major or moderate amounts of diphosphatidylglycerol, two unidentified glycolipids and three unidentified aminolipids. Several minor lipids were also detected. The major fatty acids were either C19?:?0 cyclo ?8c or C18?:?1?7c. The results of fatty acid analysis and physiological and biochemical tests allowed both, the genotypic and phenotypic differentiation of the isolates from each other, while the chemotaxonomic traits allowed them to be differentiated from the most closely related genera. In summary, low 16S rRNA gene sequence similarities and marked differences in polar lipid profiles, as well as in polyamine patterns, is suggestive of a novel genus for which the name Pseudochelatococcus gen. nov. is proposed. MPA 1113(T) (?=?CCM 8528(T)?=?LMG 28286(T)?=?CIP 110802(T)) and MPA 1105(T) (?=?CCM 8527(T)?=?LMG 28285(T)) are proposed to be the type strains representing two novel species within the novel genus, Pseudochelatococcus gen. nov., for which the names Pseudochelatococcus lubricantis sp. nov. and Pseudochelatococcus contaminans sp. nov. are suggested, respectively. PMID:25301542

Kämpfer, Peter; Glaeser, Stefanie P; Gräber, Marco; Rabenstein, Andreas; Kuever, Jan; Busse, Hans-Jürgen

2015-01-01

249

AN EXPLORATION OF DIVERSITY AMONG THE OSTERTAGIINAE: AFRICANASTRONGYLUS BUCEROS GEN. NOV. ET SP. NOV. (NEMATODA: TRICHOSTRONGYLOIDEA) IN AFRICAN BUFFALO (SYNCERUS CAFFER).  

Technology Transfer Automated Retrieval System (TEKTRAN)

Abomasal nematodes (Ostertagiine: Trichostrongyloidea) representing a previously unrecognized genus and species are reported in African Buffalo (Syncerus caffer caffer) from Kenya, Uganda and South Africa. Africanastrongylus buceros gen. nov. et sp. nov. is characterized by a symmetrical tapering ...

250

Evaluation of the GenBank, EzTaxon, and BIBI Services for Molecular Identification of Clinical Blood Culture Isolates That Were Unidentifiable or Misidentified by Conventional Methods  

PubMed Central

We compared the 16S rRNA gene sequencing results analyzed with the GenBank, EzTaxon, and BIBI databases for blood culture specimens for which identifications were incomplete, conflicting, or unidentifiable using conventional methods. Analyses performed using GenBank combined with EzTaxon (kappa = 0.79) were more discriminative than those using other databases alone or in combination with a second database. PMID:22403421

Park, Kyung Sun; Ki, Chang-Seok; Kang, Cheol-In; Kim, Yae-Jean; Chung, Doo Ryeon; Peck, Kyong Ran; Song, Jae-Hoon

2012-01-01

251

The Caenorhabditis elegans Homolog of Gen1/Yen1 Resolvases Links DNA Damage Signaling to DNA Double-Strand Break Repair  

PubMed Central

DNA double-strand breaks (DSBs) can be repaired by homologous recombination (HR), which can involve Holliday junction (HJ) intermediates that are ultimately resolved by nucleolytic enzymes. An N-terminal fragment of human GEN1 has recently been shown to act as a Holliday junction resolvase, but little is known about the role of GEN-1 in vivo. Holliday junction resolution signifies the completion of DNA repair, a step that may be coupled to signaling proteins that regulate cell cycle progression in response to DNA damage. Using forward genetic approaches, we identified a Caenorhabditis elegans dual function DNA double-strand break repair and DNA damage signaling protein orthologous to the human GEN1 Holliday junction resolving enzyme. GEN-1 has biochemical activities related to the human enzyme and facilitates repair of DNA double-strand breaks, but is not essential for DNA double-strand break repair during meiotic recombination. Mutational analysis reveals that the DNA damage-signaling function of GEN-1 is separable from its role in DNA repair. GEN-1 promotes germ cell cycle arrest and apoptosis via a pathway that acts in parallel to the canonical DNA damage response pathway mediated by RPA loading, CHK1 activation, and CEP-1/p53–mediated apoptosis induction. Furthermore, GEN-1 acts redundantly with the 9-1-1 complex to ensure genome stability. Our study suggests that GEN-1 might act as a dual function Holliday junction resolvase that may coordinate DNA damage signaling with a late step in DNA double-strand break repair. PMID:20661466

Bailly, Aymeric P.; Alpi, Arno; Lilley, David M. J.; Ahmed, Shawn; Gartner, Anton

2010-01-01

252

Koponenius gen. nov., a new genus of the millipede family Haplodesmidae from the Himalayas of India and Nepal (Diplopoda: Polydesmida).  

PubMed

The first, apparently westernmost indigenous representatives of Haplodesmidae are reported, from the Himalayas of Nepal and India. Both new species belong to a new genus, Koponenius gen. nov., with K. unicornis sp. nov., the type species from Darjeeling District, NE India, and K. biramus sp. nov., from Nepal. The new genus is superficially very similar to Prosopodesmus Silvestri, 1910, most species of which seem to be native to tropical Australia, partly also to southern Japan. However, Koponenius gen. nov. is easily distinguished in showing only 19 body segments, a special ozopore formula (5, 7-18), 4 transverse rows of setigerous isostictic tubercles per postcollum metatergum, and a clearly helicoid, twisted prefemoral portion of the gonopod so that the seminal groove runs mostly laterally, not mesally.  PMID:25544626

Golovatch, Sergei I; Vandenspiegel, Didier

2014-01-01

253

Surface Map Traffic Intent Displays and Net-Centric Data-link Communications for NextGen  

NASA Technical Reports Server (NTRS)

By 2025, U.S. air traffic is predicted to increase three fold and may strain the current air traffic management system, which may not be able to accommodate this growth. In response to this challenge, a revolutionary new concept has been proposed for U.S. aviation operations, termed the Next Generation Air Transportation System or "NextGen". Many key capabilities are being identified to enable NextGen, including the use of data-link communications. Because NextGen represents a radically different approach to air traffic management and requires a dramatic shift in the tasks, roles, and responsibilities for the flight deck, there are numerous research issues and challenges that must be overcome to ensure a safe, sustainable air transportation system. Flight deck display and crew-vehicle interaction concepts are being developed that proactively investigate and overcome potential technology and safety barriers that might otherwise constrain the full realization of NextGen. The paper describes simulation research, conducted at National Aeronautics and Space Administration (NASA) Langley Research Center, examining data-link communications and traffic intent data during envisioned four-dimensional trajectory (4DT)-based and equivalent visual (EV) surface operations. Overall, the results suggest that controller pilot data-link communications (CPDLC) with the use of mandatory pilot read-back of all clearances significantly enhanced situation awareness for 4DT and EV surface operations. The depiction of graphical traffic state and intent information on the surface map display further enhanced off-nominal detection and pilot qualitative reports of safety and awareness.

Shelton, Kevin J.; Prinzel, Lawrence J., III; Jones, Denise R.; Allamandola, Angela S.; Arthur, Jarvis J., III; Bailey, Randall E.

2009-01-01

254

A Whole Genome Scan for Pulse Pressure\\/Stroke Volume Ratio in African Americans: The HyperGEN Study  

Microsoft Academic Search

Background: Arterial stiffness is reported in numerous family studies to be heritable. Linkage analysis has identified genomic regions that likely harbor genes contributing to its phenotypic expression. We sought to identify loci contributing to arterial stiffness in a large group of African-American hypertensive families.Methods: We performed a genome scan on 1251 African Americans in families participating in the HyperGEN (Hypertension

Richard Sherva; Michael B. Miller; Amy I. Lynch; Richard B. Devereux; D. C. Rao; Albert Oberman; Paul N. Hopkins; Dalane W. Kitzman; Larry D. Atwood; Donna K. Arnett

2007-01-01

255

Zur Nomenklatur der Gattungen Porochara Mädler 1955 (syn. Musacchiella Feist & Grambast-Fessard 1984) und Feistiella n. gen. (Charophyta)  

Microsoft Academic Search

\\u000a Abstract  The basal plate of the genusPorochara MäDLER 1955 (Porocharaceae, Charophyta) was proved to be divided into two parts by examining its type species. ThusMusacchiella Feist & Grambast-Fessard 1984 is a younger synonym ofPorochara. The genusFeistiella n. gen. is established for those species with undivided basal plates and it is described with the type speciesFeistiella bijuescensis n. sp. Six other species

Michael Schudack

1986-01-01

256

NexGen LPS rotating platform total knee arthroplasty: medium-term results of a prospective study  

Microsoft Academic Search

The purpose of this study is to present midterm results of NexGen LPS (Zimmer, Warsaw) rotating platform total knee arthroplasty.\\u000a A prospective consecutive series of 50 primary rotating platform total knee replacements in 43 patients were clinically and\\u000a radiographically evaluated at a mean follow-up of 46.4 (range 30–78) months. There were 12 men (30%) and 31 women (70%) with\\u000a an

Roberto Rossi; Andrea Ferro; Matteo Bruzzone; Davide Edoardo Bonasia; Giacomo Garzaro; Filippo Castoldi

2009-01-01

257

Praecocilenchus rhaphidophorus n. gen., n. sp. (Nematoda: Aphelenchoidea) Parasitizing Rhynchophorus bilineatus (Montrouzier) (Coleoptera: Curculionidae) in New Britain  

PubMed Central

Praecocilenchus rhaphidophorus n. gen., n. sp. is described as a new endoparasitic aphelenchoid nematode parasitizing adults of the palm weevil, Rhynchophorus bilineatus (Montrouzier). P. rhaphidophorus is unusual in that juveniles develop to maturity within the female uterus and thin, needle-shaped crystals form in the intestines of mature parasitic females. Hundreds of parasitic female nematodes were found in the body cavity of infected hosts. The role of this parasite as a biological control agent of Rhynchophorus weevils is discussed. PMID:19325682

Poinar, G. O.

1969-01-01

258

The use of the NextGen model atmospheres for cool giants in a light curve synthesis code  

NASA Astrophysics Data System (ADS)

We have written a light curve synthesis code that makes direct use of model atmosphere specific intensities, in particular the NextGen model atmosphere grid for cool giants (Teff<= 6800 K and log (g)<= 3.5, Hauschildt et al. \\cite{hauschildt99}). We point out that these models (computed using spherical geometry) predict a limb darkening behaviour that deviates significantly from a simple linear or two-parameter law (there is less intensity at the limb of the star). The presence of a significantly nonlinear limb darkening law has two main consequences. First, the ellipsoidal light curve computed for a tidally distorted giant using the NextGen intensities is in general different from the light curve computed using the same geometry but with the black body approximation and a one- or two-parameter limb darkening law. In most cases the light curves computed with the NextGen intensities have deeper minima than their black body counterparts. Thus the light curve solutions for binaries with a giant component obtained with models with near linear limb darkening (either black body or plane-parallel model atmosphere intensities) are biased. Observations over a wide wavelength range (i.e. both the optical and infrared) are particularly useful in discriminating between models with nearly linear limb darkening and the NextGen models. Second, we show that rotational broadening kernels for Roche lobe filling (or nearly filling) giants can be significantly different from analytic kernels due to a combination of the nonspherical shape of the star and the radical departure from a simple limb darkening law. As a result, geometrical information inferred from Vrot sin i measurements of cool giants in binary systems are likewise biased.

Orosz, J. A.; Hauschildt, P. H.

2000-12-01

259

A rapid UPLC method for simultaneous determination of eleven components in ‘Ge-Gen-Qin-Lian’ decoction  

PubMed Central

Background: ‘Ge-Gen-Qin-Lian’ Decoction derived from ‘Shang-Han-Lun’ compiled by Zhang Zhongjing. It is widely used in the treatment of acute gastroenteritis, bacillary dysentery, virus diarrhea. This paper describes a sensitive and specific assay for the determination of the 11-marker compounds using ultra performance liquid chromatography (UPLC). Objective: To develop an UPLC method for simultaneous determination of 11 bioactive compounds in ‘Ge-Gen-Qin-Lian’ preparations. Materials and Methods: The chromatography analysis was performed on an Agilent Proshell 120 EC-C18 column (4.6 × 50 mm, 2.7 ?m) at 30°C with a gradient elution of methanol, 0.5% formic acid and 0.5% ammonium acetate at a flow rate 1.0 ml/min and UV detected at 270 nm. Results: All calibration curves showed good linear regression (r ? 0.9993) within tested ranges. Limits of detection (LOD) and limits of quantification (LOQ) fell in the range between 0.0691-1.04 ?g/ml and 0.23–3.43 ?g/ml, respectively. The mean recovery of each herbal medicine ranged from 96.60 to 102.11%. Conclusion: The method was validated for repeatability, precision, stability, accuracy, and selectivity. The validated method was successfully applied to simultaneous analysis of these active components in ‘Ge-Gen-Qin-Lian’ decoction. PMID:25422547

An, Rui; You, Lisha; Zhang, Yizhu; Wang, Xinhong; Ma, Yuemin

2014-01-01

260

Meeting Air Transportation Demand in 2025 by Using Larger Aircraft and Alternative Routing to Complement NextGen Operational Improvements  

NASA Technical Reports Server (NTRS)

A study was performed that investigates the use of larger aircraft and alternative routing to complement the capacity benefits expected from the Next Generation Air Transportation System (NextGen) in 2025. National Airspace System (NAS) delays for the 2025 demand projected by the Transportation Systems Analysis Models (TSAM) were assessed using NASA s Airspace Concept Evaluation System (ACES). The shift in demand from commercial airline to automobile and from one airline route to another was investigated by adding the route delays determined from the ACES simulation to the travel times used in the TSAM and re-generating new flight scenarios. The ACES simulation results from this study determined that NextGen Operational Improvements alone do not provide sufficient airport capacity to meet the projected demand for passenger air travel in 2025 without significant system delays. Using larger aircraft with more seats on high-demand routes and introducing new direct routes, where demand warrants, significantly reduces delays, complementing NextGen improvements. Another significant finding of this study is that the adaptive behavior of passengers to avoid congested airline-routes is an important factor when projecting demand for transportation systems. Passengers will choose an alternative mode of transportation or alternative airline routes to avoid congested routes, thereby reducing delays to acceptable levels for the 2025 scenario; the penalty being that alternative routes and the option to drive increases overall trip time by 0.4% and may be less convenient than the first-choice route.

Smith, Jeremy C.; Guerreiro, Nelson M.; Viken, Jeffrey K.; Dollyhigh, Samuel M.; Fenbert, James W.

2010-01-01

261

Mudwigglus gen. n. (Nematoda: Diplopeltidae) from the continental slope of New Zealand, with description of three new species and notes on their distribution.  

PubMed

Three new free-living nematode species belonging to the genus Mudwigglus gen. n. are described from the continental slope of New Zealand. The new genus is characterised by four short cephalic setae, fovea amphidialis in the shape of an elongated loop, narrow mouth opening, small, lightly cuticularised buccal cavity, pharynx with oval-shaped basal bulb, and secretory-excretory pore (if present) at level of pharyngeal bulb or slightly anterior. Mudwigglus gen. et sp. n. differs from other genera of the family Diplopeltidae in the combination of the following traits: presence of reflexed ovaries, male reproductive system with both testes directed anteriorly and reflexed posterior testis, and presence of tubular pre-cloacal supplements and pre-cloacal seta. Mudwigglus patumuka gen. et sp. n. is characterised by gubernaculum with dorso-caudal apophyses, vagina directed posteriorly, and short conical tail with three terminal setae. M. macramphidum gen. et sp. n. is characterised by long fovea amphidialis, cylindrical buccal cavity, gubernaculum without apophyses, vagina at right angle to body surface, and conico-cylindrical tail without terminal setae. M. plebeius gen. et sp. n. is characterised by cylindrical buccal cavity with cuticularised ring, gubernaculum with dorso-caudal apophyses, females with vagina directed posteriorly, and conico-cylindrical tail with two terminal setae. Diplopeluta nellyae Vinex and Gourbault, 1992 is transferred to Mudwigglus gen. n. based on observations of paratypes from New Caledonia, and of specimens from the New Zealand continental slope, which both show the presence of two testes facing anteriorly. M. macramphidum gen. et sp. n. was restricted to a single site on Chatham Rise crest (350 m water depth), whereas M. patumuka gen. et sp. was recorded from six sites on western Chatham Rise (350-2800 m). M. plebeius gen. et sp. n. was recorded from 13 sites on Chatham Rise and two sites on Challenger Plateau (264-2300 m). Mudwigglus nellyae comb. n. was restricted to two Challenger Plateau sites. All Mudwigglus gen. n. species appear to be restricted to subsurface sediments. PMID:25243291

Leduc, Daniel

2013-01-01

262

Mining metadata from unidentified ITS sequences in GenBank: A case study in Inocybe (Basidiomycota)  

PubMed Central

Background The lack of reference sequences from well-identified mycorrhizal fungi often poses a challenge to the inference of taxonomic affiliation of sequences from environmental samples, and many environmental sequences are thus left unidentified. Such unidentified sequences belonging to the widely distributed ectomycorrhizal fungal genus Inocybe (Basidiomycota) were retrieved from GenBank and divided into species that were identified in a phylogenetic context using a reference dataset from an ongoing study of the genus. The sequence metadata of the unidentified Inocybe sequences stored in GenBank, as well as data from the corresponding original papers, were compiled and used to explore the ecology and distribution of the genus. In addition, the relative occurrence of Inocybe was contrasted to that of other mycorrhizal genera. Results Most species of Inocybe were found to have less than 3% intraspecific variability in the ITS2 region of the nuclear ribosomal DNA. This cut-off value was used jointly with phylogenetic analysis to delimit and identify unidentified Inocybe sequences to species level. A total of 177 unidentified Inocybe ITS sequences corresponding to 98 species were recovered, 32% of which were successfully identified to species level in this study. These sequences account for an unexpectedly large proportion of the publicly available unidentified fungal ITS sequences when compared with other mycorrhizal genera. Eight Inocybe species were reported from multiple hosts and some even from hosts forming arbutoid or orchid mycorrhizae. Furthermore, Inocybe sequences have been reported from four continents and in climate zones ranging from cold temperate to equatorial climate. Out of the 19 species found in more than one study, six were found in both Europe and North America and one was found in both Europe and Japan, indicating that at least many north temperate species have a wide distribution. Conclusion Although DNA-based species identification and circumscription are associated with practical and conceptual difficulties, they also offer new possibilities and avenues for research. Metadata assembly holds great potential to synthesize valuable information from community studies for use in a species and taxonomy-oriented framework. PMID:18282272

2008-01-01

263

Comparison of gentamicin dose estimates derived from manual calculations, the Australian ‘Therapeutic Guidelines: Antibiotic’ nomogram and the SeBA-GEN and DoseCalc software programs  

PubMed Central

Aim To compare gentamicin dose estimates from four predictive methods. Methods A retrospective study was conducted, comprising patients at Fremantle Hospital who received gentamicin therapy and had at least one gentamicin serum concentration reported. A manual calculation method, the Australian ‘Therapeutic Guidelines: Antibiotic’ (TGA) nomogram and the SeBA-GEN and DoseCalc software packages were compared. SeBA-GEN dose estimates were regarded as the reference standard. Results There were 64 males and 30 females with mean age of 58 ± 16 years. In patients with moderate renal impairment (CLCr = 30–60 ml min?1; n = 21), mean dose estimates using DoseCalc and the manual calculation method were comparable to SeBA-GEN but the mean TGA nomogram dose (230 mg; 95% confidence interval 179, 281) was significantly lower than SeBA-GEN (286 mg; 261, 311; P = 0.002; one-way RM anova). In patients with mild renal impairment (CLCr = 60–90 ml min?1; n = 48), DoseCalc (392 mg; 367, 427) was comparable to SeBA-GEN (377 mg; 362, 392). Although the manual method (341 mg; 306, 376; P = 0.007) and the TGA nomogram (335 mg; 302, 368; P < 0.001) estimates were significantly lower than SeBA-GEN, the practical difference was modest. Conclusions SeBA-GEN and DoseCalc are generally comparable for estimation of gentamicin doses in patients with renal impairment. The ‘Therapeutic Guidelines: Antibiotic’ nomogram is a valid approach to dosage estimation, but only when used in patients with normal renal function. Simple manual calculations are a suitable alternative in patients with renal impairment. PMID:15521900

Mohan, Mitali; Batty, Kevin T; Cooper, Jennifer A; Wojnar-Horton, Richard E; Ilett, Kenneth F

2004-01-01

264

Acidomelania panicicola gen. et sp. nov. from switchgrass roots in acidic New Jersey pine barrens.  

PubMed

A new genus, Acidomelania, is described based on molecular phylogenetic analyses and ecological and morphological characters. Isolated from switchgrass roots in acidic and oligotrophic New Jersey pine barrens in this study, Acidomelania likely has a global distribution because its internal transcribed spacer (ITS) sequence has high similarity with a number of GenBank sequences resulted from various ecological studies. Apparently these samples all were from roots of plants that lived in acidic, nutrient-poor environments. Phylogenetic analyses based on ITS, LSU and ACT sequence data strongly supported the fact that Acidomelania isolates formed a monophyletic clade in Helotiales, distinct from any known taxa. Phylogenetically Acidomelania is closely related to Loramyces, Mollisia and Phialocephala fortinii, Acephala applanata species complex (PAC), the dark septate endophytes. Acidomelania also can be distinguished from Loramyces and Mollisia by its association with living grass roots. While taxa in PAC also are root endophytes, they have more complex phialid arrangement than Acidomelania. Results from this work will facilitate ecological and evolutionary studies on root-associated fungi. PMID:24891423

Walsh, Emily; Luo, Jing; Zhang, Ning

2014-01-01

265

Heterorhabditidoides chongmingensis gen. nov., sp. nov. (Rhabditida: Rhabditidae), a novel member of the entomopathogenic nematodes.  

PubMed

During a recent soil sample survey in Eastern China, a new entomopathogenic nematode species, collected from the Chongming Islands in the southern-eastern area of Shanghai, was discovered. Morphological characteristics of different developmental stages of the nematode combined with molecular data showed that this nematode is a new genus of Rhabditidae, and described as Heterorhabditidoides chongmingensis gen. nov., sp. nov., for that it shares more morphological characteristics with heterorhabditids than with steinernematids. For males, the papillae formula of bursa is 1, 2, 3, 3, with constant papillae number in the terminal group, stoma tubular-shaped and about 1.5 head width; cheilorhabdions cuticularized, esophageal collar present and long, median bulb present. For infective juveniles, EP=90 (80-105)microm, ES=104 (92-120)microm, tail length=111 (89-159)microm, and a=19.1 (15-21). The percentages of the nucleotides A, T, C and G in the ITS1 regions of the new species are significantly different from those of heterorhabditids and other rhabditids. Molecular phylogenetic trees based on 18S rDNA and the internal transcribed spacer (ITS) sequences data revealed that the new entomopathogenic nematode species forms a monophyletic group, which is a sister group of the clade comprised of some genera of Rhabditidae. PMID:18410943

Zhang, Chongxing; Liu, Jingrui; Xu, Mingxu; Sun, Jie; Yang, Shouyun; An, Xianhui; Gao, Guofu; Lin, Maosong; Lai, Ren; He, Ziyi; Wu, Yidong; Zhang, Keyun

2008-06-01

266

Compostibacillus humi gen. nov., sp. nov., a member of the family Bacillaceae , isolated from sludge compost.  

PubMed

Two novel Gram-staining-positive, rod-shaped, endospore-forming, and moderately thermophilic bacteria, designated strain DX-3T and GIESS002, respectively were isolated from sludge composts from Guangdong Province, China. Analysis of 16S rRNA gene sequences revealed that the isolates were closely related to each other with extremely high similarity (99.6%), and were members of the family Bacillaceae. However, these two isolates formed a novel phylogenetic branch within this family. Their closest relatives were the members of the genera Ornithinibacillus, Oceanobacillus and Virgibacillus. Cells of both strains were facultatively anaerobic and catalase- and oxidase-positive. The cell-wall peptidoglycan type was A1? (meso-DAP direct). The predominant isoprenoid quinone was MK-7. The main polar lipids were diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. The major cellular fatty acid was iso-C15:0. The DNA G+C content was 43.2-43.7 mol%. The polyphasic taxonomic results indicated that strains DX-3T and GIESS002 represent a novel species in a new genus in the family Bacillaceae, order Bacillales for which the name Compostibacillus humi gen. nov., sp. nov. is proposed. The type strain is DX-3T (=KCTC 33104T =CGMCC 1.12360T). PMID:25358510

Yu, Zhen; Wen, Junlin; Yang, Guiqin; Liu, Jing; Zhou, Shungui

2014-10-30

267

Ferrovibrio denitrificans gen. nov., sp. nov., a novel neutrophilic facultative anaerobic Fe(II)-oxidizing bacterium.  

PubMed

A neutrophilic Fe(II)-oxidizing bacterium was isolated from the redox zone of a low-salinity spring in Krasnodar krai (Russia), at the FeS-Fe(OH)(3) interface deposited at the sediment surface. The cells of strain Sp-1 were short, thin motile vibrioids with one polar flagellum dividing by binary fission. The optimal values and ranges for pH and temperature were pH 6.2 (5.5-8) and 35 °C (5-45 °C), respectively. The organism was a facultative anaerobe. Strain Sp-1 was capable of organotrophic, lithoheterotrophic and mixotrophic growth with Fe(II) as an electron donor. The denitrification chain was 'disrupted'. Oxidation of Fe(II) was coupled to reduction of NO3 - to NO2 - or of N(2) O to N(2) , as well as under microaerobic conditions, with O(2) as an electron acceptor. The DNA G+C content was 64.2 mol%. According to the results of phylogenetic analysis, the strain was 10.6-12% remote from the closest relatives, members of the genera Sneathiella, Inquilinus, Oceanibaculum and Phaeospirillum within the Alphaproteobacteria. Based on its morphological, physiological and taxonomic characteristics, together with the results of phylogenetic analysis, strain Sp-1 is described as a member of a new genus Ferrovibrio gen. nov., with the type species Ferrovibrio denitrificans sp. nov. and the type strain Sp-1(T) (= LMG 25817(T)  = VKM B-2673(T) ). PMID:22765162

Sorokina, Anna Y; Chernousova, Elena Y; Dubinina, Galina A

2012-10-01

268

Caldimonas manganoxidans gen. nov., sp. nov., a poly(3-hydroxybutyrate)-degrading, manganese-oxidizing thermophile.  

PubMed

A poly(3-hydroxybutyrate) (PHB)-degrading, gram-negative, aerobic bacterium, strain HS(T), was isolated from a hot spring and chemotaxonomically and phylogenetically characterized. The oxidase-positive, weakly catalase-positive, non-pigmented cells (0.6 x 2.6 microm) exhibited a single polar flagellum and accumulated PHB granules. Strain HS(T) was capable of manganese oxidation. Highest growth rate was attained at 50 degrees C. The optimum pH for growth was 7-8. The major respiratory quinone was ubiquinone-8 and major cellular fatty acids were C16:0, C16:1 and C18:1. The G+C content of the DNA was 66.2 mol%. Comparative 16S rDNA analysis indicated that strain HS(T) is related to the Rubrivivax subgroup and the family Comamonadaceae. The nearest phylogenetic relatives were Ideonella dechloratans (92.1% similarity), Leptothrix discophora (93.6%), Roseateles depolymerans (92.4%) and Rubrivivax gelatinosus (92.2%). On the basis of its phylogenetic and phenotypic properties, it is proposed that this isolate be designated Caldimonas manganoxidans gen. nov., sp. nov.; the type strain is HS(T) (= JCM 10698T = IFO 16448T = ATCC BAA-369T). PMID:12054255

Takeda, Minoru; Kamagata, Yoichi; Ghiorse, William C; Hanada, Satoshi; Koizumi, Jun-ichi

2002-05-01

269

Inhella inkyongensis gen. nov., sp. nov., a new freshwater bacterium in the order Burkholderiales.  

PubMed

A freshwater bacterium, designated IMCC1713(T), was isolated from a highly eutrophic artificial pond. Cells of the strain were Gram-negative, chemoheterotrophic, polybeat and obligately aerobic short rods that were motile with a single polar flagellum. The 16S rRNA gene sequence similarity analysis showed that the novel strain was most closely related to the species Roseateles depolymerans (96.3%), Mitsuaria chitosanitabida (96.2%), Ideonella dechloratans (96.2%), and Pelomonas saccharophila (96.1%) in the Sphaerotilus-Leptothrix group within the order Burkholderiales. Phylogenetic trees based on 16S rRNA gene sequences indicated that the isolate formed an independent monophyletic clade within the order Burkholderiales. The relatively low DNA G+C content (57.4 mol%), together with several phenotypic characteristics, differentiated the novel strain from other members of the Sphaerotilus-Leptothrix group. From the taxonomic data, therefore, the strain should be classified as a novel genus and species, for which the name Inhella inkyongensis gen. nov., sp. nov. is proposed. The type strain of the proposed species is strain IMCC1713(T) (=KCTC 12791(T)=NBRC 103252(T)=CCUG 54308(T)). PMID:19190402

Song, Jaeho; Oh, Hyun-Myung; Lee, Jung-Sook; Woo, Seung-Buhm; Cho, Jang-Cheon

2009-01-01

270

Caenibacterium thermophilum gen. nov., sp. nov., isolated from a thermophilic aerobic digester of municipal sludge.  

PubMed

A bacterial strain, N2-680(T) (=DSM 15264(T)=LMG 21760(T)), isolated from a thermophilic aerobic digester of municipal sludge, was characterized with respect to its morphology, physiology and taxonomy. Phenotypically, the isolate was a Gram-negative rod with a polar flagellum, catalase- and oxidase-positive, containing cytoplasmic inclusions of poly-beta-hydroxybutyrate and had an optimal growth temperature of about 47 degrees C. Strain N2-680(T) was unable to reduce nitrate and could use organic acids, amino acids and carbohydrates as single carbon sources. Chemotaxonomic analysis revealed that ubiquinone 8 was the major respiratory quinone of this organism and that phosphatidylethanolamine and phosphatidylglycerol were the major polar lipids. At 50 degrees C, the major components in fatty acid methyl ester analysis were C(16 : 0) and cyclo-C(17 : 0). The highest 16S rDNA sequence identity of isolate N2-680(T) was to Leptothrix mobilis and Ideonella dechloratans (95.7 %) and to Rubrivivax gelatinosus and Aquabacterium commune (95.6 %). 16S rDNA sequence similarities to species of two related thermophilic genera, Caldimonas manganoxidans and Tepidimonas ignava, were lower (93.6 and 94.7 %). On the basis of phylogenetic analyses and physiological and chemotaxonomic characteristics, it is proposed that isolate N2-680(T) represents a new genus and species, for which the name Caenibacterium thermophilum gen. nov., sp. nov. is proposed. PMID:13130021

Manaia, Célia M; Nunes, Olga C; Nogales, Balbina

2003-09-01

271

Agaribacter marinus gen. nov., sp. nov., an agar-degrading bacterium from surface seawater.  

PubMed

A Gram-stain-negative, motile, mesophilic, aerobic, rod-shaped bacterium, strain 8-8(T), was isolated from surface seawater at Muroto, Kochi, Japan. The strain exhibited agar-degrading activity. Phylogenetic analyses based on 16S rRNA gene sequences showed that the strain fell within the family Alteromonadaceae and clustered distantly with members of the genus Glaciecola (? 94.0% similarity). The DNA G+C content was 41.8 mol%. The major fatty acids were C16 : 1?7c and/or iso-C15 : 0 2-OH, C16?:?0 and C18 : 1?7c and the major hydroxy fatty acid was C12 : 0 3-OH. The major polar lipids were phosphatidylethanolamine, phosphatidylglycerol and an unidentified polar lipid; lysophosphatidylethanolamine and unidentified polar lipids were found as minor components. The major quinone was Q-8. On the basis of phenotypic, genotypic and chemotaxonomic data, strain 8-8(T) represents a novel species of a new genus, for which the name Agaribacter marinus gen. nov., sp. nov. is proposed. The type strain of Agaribacter marinus is 8-8(T) (?= NBRC 110023(T)?= LMG 28167(T)). PMID:24763604

Teramoto, Maki; Nishijima, Miyuki

2014-07-01

272

Four New Species of Heteroderidae Including Ekphymatodera n. gen. from California  

PubMed Central

Four new species and a new genus of Heteroderidae from California are described, and their significance for phylogenetic analysis of the family is discussed. The new genus with type species, Ekphymatodera thomasoni n. gen., n. sp., shares many characteristics with Hylonema Luc, Taylor, &Cadet, 1978, but it is distinguished by its much greater vulva-anus distance and unique cuticular pattern. Hypotheses of relationships of Ekphymatodera and Hylonema with Sarisodera Wouts and Sher, 1971 versus Heterodera Schmidt, 1871 are discussed. Verutus californicus n. sp. is larger than the type species, Verutus volvingentis Esser, 1981, differing in females particularly by the greater distance of its excretory pore from the anterior end. Monophyly of Verutus, which may be an outgroup of all other Heteroderidae, is strengthened by description of V. californicus. Atalodera trilineata n. sp. differs from other ataloderines by having second-stage juveniles with three lateral lines and from the type, Atalodera ucri Wouts and Sher, 1971, by the more subtle cuticular pattern of females and longer juveniles with much longer tails. Atalodera festucae n. sp., with four lateral lines in juveniles, has smaller females than A. trilineata and has a protruding dorsal vulval lip. A unique common ancestor for Atalodera-Sherodera-Thecavermiculatus is supported, and monophyly with Thecavermieulatus andinus Golden, Franco, Jatala, &Astocaza, 1973 is considered. PMID:19287576

Baldwin, J. G.; Bernard, E. C.; Mundo-Ocampo, M.

1989-01-01

273

Ercella succinigenes gen. nov., sp. nov., an anaerobic succinate-producing bacterium.  

PubMed

A novel anaerobic succinate-producing bacterium, strain ZWB(T), was isolated from sludge collected from a biogas desulfurization bioreactor (Eerbeek, the Netherlands). Cells were non-spore-forming, motile, slightly curved rods (0.4-0.5 µm in diameter and 2-3 µm in length), and stained Gram-negative. The temperature range for growth was 25-40 °C, with an optimum at 37 °C. The pH range for growth was 7.0-9.0, with an optimum at pH 7.5. Strain ZWB(T) was able to ferment glycerol and several carbohydrates mainly to H2, succinate and acetate. Sulfur and fumarate could be used as electron acceptors by strain ZWB(T). The G+C content of the genomic DNA was 37.6 mol%. The most abundant fatty acids were iso-C14 : 0 and iso-C16?:?0 DMA. On the basis of 16S rRNA gene sequence similarity, strain ZWB(T) belongs to the family Ruminococcaceae and it is distantly related to Saccharofermentans acetigenes JCM 14006(T) (92.1%). Based on the physiological features and phylogenetic analysis, strain ZWB(T) represents a novel species of a new genus, for which the name Ercella succinigenes gen. nov., sp. nov. is proposed. The type strain of Ercella succinigenes is ZWB(T) (?= DSM 27333(T)?= JCM 19283(T)). PMID:24776531

van Gelder, Antonie H; Sousa, Diana Z; Rijpstra, W Irene C; Damsté, Jaap S Sinninghe; Stams, Alfons J M; Sánchez-Andrea, Irene

2014-07-01

274

Kretzoiarctos gen. nov., the oldest member of the giant panda clade.  

PubMed

The phylogenetic position of the giant panda, Ailuropoda melanoleuca (Carnivora: Ursidae: Ailuropodinae), has been one of the most hotly debated topics by mammalian biologists and paleontologists during the last century. Based on molecular data, it is currently recognized as a true ursid, sister-taxon of the remaining extant bears, from which it would have diverged by the Early Miocene. However, from a paleobiogeographic and chronological perspective, the origin of the giant panda lineage has remained elusive due to the scarcity of the available Miocene fossil record. Until recently, the genus Ailurarctos from the Late Miocene of China (ca. 8-7 mya) was recognized as the oldest undoubted member of the Ailuropodinae, suggesting that the panda lineage might have originated from an Ursavus ancestor. The role of the purported ailuropodine Agriarctos, from the Miocene of Europe, in the origins of this clade has been generally dismissed due to the paucity of the available material. Here, we describe a new ailuropodine genus, Kretzoiarctos gen. nov., based on remains from two Middle Miocene (ca. 12-11 Ma) Spanish localities. A cladistic analysis of fossil and extant members of the Ursoidea confirms the inclusion of the new genus into the Ailuropodinae. Moreover, Kretzoiarctos precedes in time the previously-known, Late Miocene members of the giant panda clade from Eurasia (Agriarctos and Ailurarctos). The former can be therefore considered the oldest recorded member of the giant panda lineage, which has significant implications for understanding the origins of this clade from a paleobiogeographic viewpoint. PMID:23155439

Abella, Juan; Alba, David M; Robles, Josep M; Valenciano, Alberto; Rotgers, Cheyenn; Carmona, Raül; Montoya, Plinio; Morales, Jorge

2012-01-01

275

Kretzoiarctos gen. nov., the Oldest Member of the Giant Panda Clade  

PubMed Central

The phylogenetic position of the giant panda, Ailuropoda melanoleuca (Carnivora: Ursidae: Ailuropodinae), has been one of the most hotly debated topics by mammalian biologists and paleontologists during the last century. Based on molecular data, it is currently recognized as a true ursid, sister-taxon of the remaining extant bears, from which it would have diverged by the Early Miocene. However, from a paleobiogeographic and chronological perspective, the origin of the giant panda lineage has remained elusive due to the scarcity of the available Miocene fossil record. Until recently, the genus Ailurarctos from the Late Miocene of China (ca. 8–7 mya) was recognized as the oldest undoubted member of the Ailuropodinae, suggesting that the panda lineage might have originated from an Ursavus ancestor. The role of the purported ailuropodine Agriarctos, from the Miocene of Europe, in the origins of this clade has been generally dismissed due to the paucity of the available material. Here, we describe a new ailuropodine genus, Kretzoiarctos gen. nov., based on remains from two Middle Miocene (ca. 12–11 Ma) Spanish localities. A cladistic analysis of fossil and extant members of the Ursoidea confirms the inclusion of the new genus into the Ailuropodinae. Moreover, Kretzoiarctos precedes in time the previously-known, Late Miocene members of the giant panda clade from Eurasia (Agriarctos and Ailurarctos). The former can be therefore considered the oldest recorded member of the giant panda lineage, which has significant implications for understanding the origins of this clade from a paleobiogeographic viewpoint. PMID:23155439

Abella, Juan; Alba, David M.; Robles, Josep M.; Valenciano, Alberto; Rotgers, Cheyenn; Carmona, Raül; Montoya, Plinio; Morales, Jorge

2012-01-01

276

Pararotylenchus n. gen. (Pararotylenchinae n. subfam., Hoplolaimidae) with Six New Species and Two New Combinations  

PubMed Central

A new subfamily, Pararotylenchinae, (Hoplolaimidae) is described. It includes a single genus, Pararotylenchus n. gen., six new species, attd two new combinations, Pararotylenchus (syn. Tylenchorhynchus) brevicaudatus (Hopper, 1959) n. comb. and Pararotylenchus (syn. Rotylenchus) pint (Mamiya, 1968) n. comb. Pararotylenchinae is similar to certain other Hoplolaimidae, such as Rotylenchinae, with respect to most characters including the short tail, the position of the phasmids near the anus, and the relatively great distance of the dorsal gland orifice from the base of the stylet knobs. The lip region, as observed with the scanning electron microscope, conforms to the basic pattern for Hoplolaimidae. The labial disc is round with slit-like amphidial openings at the lateral sides of the periphery of the disc. The distinctive anterior-most lip annule is segmented into six sectors. Unlike other Hoplolaimidae, however, the esophageal glands of Pararotylenchinae form a basal bulb similar to that of Tylenchorhynchidae; other characters do not resemble Tylencborhynchidae. Specimens of Pararotylenchus have been recovered only from cool regions at high elevations and Pacific coastal areas in the Western United States, Japan, and Korea. PMID:19300732

Baldwin, J. G.; Bell, A. H.

1981-01-01

277

Using Game Theoretic Models to Predict Pilot Behavior in NextGen Merging and Landing Scenario  

NASA Technical Reports Server (NTRS)

In this paper, we present an implementation of the Semi Network-Form Game framework to predict pilot behavior in a merging and landing scenario. In this scenario, two aircraft are approaching to a freeze horizon with approximately equal distance when they become aware of each other via an ADS-B communication link that will be available in NextGen airspace. Both pilots want to gain advantage over the other by entering the freeze horizon earlier and obtain the first place in landing. They re-adjust their speed accordingly. However, they cannot simply increase their speed to the maximum allowable values since they are concerned with safety, separation distance, effort, possibility of being vectored-off from landing and possibility of violating speed constraints. We present how to model these concerns and the rest of the system using semi network-from game framework. Using this framework, based on certain assumptions on pilot utility functions and on system configuration, we provide estimates of pilot behavior and overall system evolution in time. We also discuss the possible employment of this modeling tool for airspace design optimization. To support this discussion, we provide a case where we investigate the effect of increasing the merging point speed limit on the commanded speed distribution and on the percentage of vectored aircraft.

Yildiz, Yildiray; Lee, Ritchie; Brat, Guillaume

2012-01-01

278

[Longitudinal observation of pulmonary tuberculosis patients by Gen-Probe Mycobacterium tuberculosis direct test (MTD)].  

PubMed

To study the clinical significance of conducting Gen-Probe Mycobacterium tuberculosis Direct Test (MTD) during the course of the disease, sputum specimens from 19 pulmonary tuberculosis patients were smeared, cultured, and tested by MTD, once a month for five months from the initiation of chemotherapy. 1) MTD-positive rates declined in parallel with decreased pulmonary tuberculosis activity, and the MTD findings of 16 patients who presented mild to moderate pulmonary tuberculosis at admission became negative by four months after the beginning of treatment. Three patients (15.8%) who were consistently positive for MTD during five months after the beginning of treatment were serious pulmonary tuberculosis patients, excreting a large number of organisms at admission. 2) During the course, a total of 43 MTD negative findings were observed, of which one (2.3%) was positive for Ogawa medium culture and the other 42 (92.7%) were negative. MTD was useful in briefly determining the absence of infection, provided that a negative culture on Ogawa medium means no infection. 3) Eleven of the 12 specimens (91.7%) showing positive smears and negative cultures on Ogawa medium were positive for MTD. Since MTD shows negative results for atypical mycobacteria, this is a very useful test in identifying acid fast bacilli which shows a positive smear and a negative culture. PMID:7745308

Toyoda, T; Aoyagi, T; Osumi, M; Kawashiro, T

1995-03-01

279

Streptimonospora salina gen. nov., sp. nov., a new member of the family Nocardiopsaceae.  

PubMed

Actinomycete strain YIM 90002T (= CCTCC 99003T = CCRC 16284T) was isolated from a soil sample collected from a salt lake in the west of China. The aerial mycelium of this organism is well developed but not fragmented and, at maturity, forms short chains of spores. Spores in short chains are oval- to rod-shaped and have wrinkled surfaces. Substrate mycelium is branched with non-fragmenting hyphae and forms single oval to round spores borne on sporophores or dichotomously branching sporophores. Single spores have wrinkled surfaces. Single spores and spores in short chains are non-motile. Strain YIM 90002T contains meso-diaminopimelic acid, DD-diaminopimelic acid, glycine, lysine and aspartic acid in its cell wall and has glucose, galactose, ribose, xylose, arabinose and mannose as whole-cell sugars (no diagnostic sugars). The phospholipids are phosphatidylglycerol, phosphatidylinositol and phosphatidylethanolamine. The major menaquinones are MK-9(H6), MK-10(H2) and MK-10(H4). Phylogenetic data indicate that this strain belongs to the family Nocardiopsaceae. The morphological and physiological characteristics and chemotaxonomic and phylogenetic data for this strain differ from those of previously described actinomycetes. Therefore, a new genus, Streptimonospora, is proposed for this organism; the type species of the genus is Streptimonospora salina gen. nov., sp. nov., and the type strain of S. salina is strain YIM 90002T. PMID:11321080

Cui, X L; Mao, P H; Zeng, M; Li, W J; Zhang, L P; Xu, L H; Jiang, C L

2001-03-01

280

Actinopolymorpha singaporensis gen. nov., sp. nov., a novel actinomycete from the tropical rainforest of Singapore.  

PubMed

A novel actinomycete was isolated from soil in the tropical rainforest of Singapore. The cells of this actinomycete are highly pleomorphic. In the early stages of growth, most cells are of irregular squarish shape and varied sizes. Cells remain attached after cell division, often forming chains or aggregates of a few cells. Cells at the end of a chain tend to elongate. With prolonged cultivation, cells show different degrees of elongation and enlargement, producing branched hyphae of uneven thickness. At the periphery of the colony, long hyphae form, which are divided into alternating segments of elongated cells and chains of squarish cells. This actinomycete is considerably salt-tolerant, able to grow in the presence of 15% NaCl. Chemotaxonomically, it contains LL-diaminopimelic acid (DAP) in the cell wall, type PI phospholipids and MK-9(H6) as the predominant menaquinone. 16S rDNA sequence analysis assigned this actinomycete to the family Nocardioidaceae, but its 16S rDNA shared no more than 91.2% sequence similarity with other members of the family. Based on phenotypic, chemotaxonomic and phylogenetic evidence, it is proposed that this actinomycete be classified as a new species in a new genus, Actinopolymorpha singaporensis gen. nov., sp. nov. PMID:11321092

Wang, Y M; Zhang, Z S; Xu, X L; Ruan, J S; Wang, Y

2001-03-01

281

Investigating contact toxicity of Geranium and Artemisia essential oils on Bemisia tabaci Gen.  

PubMed Central

Objective: Sweet potato whitefly, Bemisia tabaci Gen. (B. tabaci), is one of the most important pests of various greenhouse crops in Iran. Nowadays, chemical insecticides are broadly used for control of the pests that causes risk to consumer's health. For the first time, contact toxicity of Pelargonium roseum Andrews and Artemisia sieberi Besser essential oils on B. tabaci and its possible application against the whitefly was evaluated in 2012. Materials and Methods: Essential oil with concentrations of 2500, 1250, 125, and 12 ppm were used. Infested leaves of greenhouse cucumber were treated by mentioned concentrations. After 24 hours, mortality of B. tabaci was recorded and compared after correcting by Abbot's formula. Results: Results showed that all concentrations of the essential oil could significantly reduce population of B. tabaci compared with the control treatment. Phytotoxicity of the treated leaves were recorded after 24, 48, and 72 hours and compared with the control. Concentrations of 2500, 1250, and 125 ppm caused severe phytotoxicity on greenhouse cucumber leaves and therefore are not suitable for greenhouse application. Phytotoxicity of 12 ppm was relatively low. Conclusions: This data implicated suitable protective effects of the essential oils to the pest infestation. Therefore, essential oils distillated from Geranium and Artemisia could be applied to control B. tabaci in greenhouse cucumber at V/V 12 ppm. PMID:25050264

Yarahmadi, Fatemeh; Rajabpour, Ali; Zandi Sohani, Nooshin; Ramezani, Leila

2013-01-01

282

Aurapex penicillata gen. sp. nov. from native Miconia theaezans and Tibouchina spp. in Colombia.  

PubMed

Conidiomata of a fungus resembling Chrysoporthe cubensis, a serious canker pathogen of Eucalyptus spp. (Myrtaceae, Myrtales) in tropical and subtropical parts of the world, was found on Eucalyptus grandis in Colombia. Fruiting structures of the fungus could be distinguished from those of C. cubensis by their distinctly orange conidiomatal necks. This fungus also was found on several plant species native to Colombia including Tibouchina urvilleana, T. lepidota and Miconia theaezans (Melastomataceae, Myrtales). Morphological comparisons, as well as those based on sequences of the ITS1/ITS2 region of the ribosomal DNA repeat and the beta-tubulin gene, were used to characterize this fungus. Its pathogenicity was assessed on various plants from which it has been collected, either in field or greenhouse trials. Phylogenetic analyses showed that isolates reside in a clade distinct from the four clades accommodating Chrysoporthe, Cryphonectria, Endothia and Rostraureum. Members of this clade are distinguished by the presence of orange conidiomatal necks with black bases and a unique internal stromatal structure. No teleomorph has been found for this fungus, for which we have provided the name Aurapex penicillata gen. sp. nov. A. penicillata produced only small lesions after inoculation on young T. urvilleana, M. theaezans and E. grandis trees and appears not to be a serious pathogen. PMID:16800308

Gryzenhout, Marieka; Myburg, Henrietta; Rodas, Carlos A; Wingfield, Brenda D; Wingfield, Michael J

2006-01-01

283

Celoporthe dispersa gen. et sp. nov. from native Myrtales in South Africa  

PubMed Central

In a survey for Cryphonectria and Chrysoporthe species on Myrtales in South Africa, a fungus resembling the stem canker pathogen Chrysoporthe austroafricana was collected from native Syzygium cordatum near Tzaneen (Limpopo Province), Heteropyxis canescens near Lydenburg (Mpumalanga Province) and exotic Tibouchina granulosa in Durban (KwaZulu-Natal Province). The fungus was associated with dying branches and stems on S. cordatum, H. canescens and T. granulosa. However, morphological differences were detected between the unknown fungus from these three hosts and known species of Chrysoporthe. The aim of this study was to characterise the fungus using DNA sequence comparisons and morphological features. Pathogenicity tests were also conducted to assess its virulence on Eucalyptus (ZG 14 clones), H. natalensis and T. granulosa. Plants of H. canescens were not available for inoculation. Results showed distinct morphological differences between the unknown fungus and Chrysoporthe spp. Phylogenetic analysis showed that isolates reside in a clade separate from Chrysoporthe and other related genera. Celoporthe dispersa gen. et sp. nov. is, therefore, described to accommodate this fungus. Pathogenicity tests showed that C. dispersa is not pathogenic to H. natalensis, but that it is a potential pathogen of Eucalyptus and Tibouchina spp. PMID:18490984

Nakabonge, Grace; Gryzenhout, Marieka; Roux, Jolanda; Wingfield, Brenda D.; Wingfield, Michael J.

2006-01-01

284

Celoporthe dispersa gen. et sp. nov. from native Myrtales in South Africa.  

PubMed

In a survey for Cryphonectria and Chrysoporthe species on Myrtales in South Africa, a fungus resembling the stem canker pathogen Chrysoporthe austroafricana was collected from native Syzygium cordatum near Tzaneen (Limpopo Province), Heteropyxis canescens near Lydenburg (Mpumalanga Province) and exotic Tibouchina granulosa in Durban (KwaZulu-Natal Province). The fungus was associated with dying branches and stems on S. cordatum, H.canescens and T.granulosa. However, morphological differences were detected between the unknown fungus from these three hosts and known species of Chrysoporthe. The aim of this study was to characterise the fungus using DNA sequence comparisons and morphological features. Pathogenicity tests were also conducted to assess its virulence on Eucalyptus (ZG 14 clones), H.natalensis and T. granulosa. Plants of H. canescens were not available for inoculation. Results showed distinct morphological differences between the unknown fungus and Chrysoporthe spp. Phylogenetic analysis showed that isolates reside in a clade separate from Chrysoporthe and other related genera. Celoporthe dispersa gen. et sp. nov. is, therefore, described to accommodate this fungus. Pathogenicity tests showed that C.dispersa is not pathogenic to H. natalensis, but that it is a potential pathogen of Eucalyptus and Tibouchina spp. PMID:18490984

Nakabonge, Grace; Gryzenhout, Marieka; Roux, Jolanda; Wingfield, Brenda D; Wingfield, Michael J

2006-01-01

285

Bandoniozyma gen. nov., a Genus of Fermentative and Non-Fermentative Tremellaceous Yeast Species  

PubMed Central

Background Independent surveys across the globe led to the proposal of a new basidiomycetous yeast genus within the Bulleromyces clade of the Tremellales, Bandoniozyma gen. nov., with seven new species. Methodology/Principal Findings The species were characterized by multiple methods, including the analysis of D1/D2 and ITS nucleotide sequences, and morphological and physiological/biochemical traits. Most species can ferment glucose, which is an unusual trait among basidiomycetous yeasts. Conclusions/Significance In this study we propose the new yeast genus Bandoniozyma, with seven species Bandoniozyma noutii sp. nov. (type species of genus; CBS 8364T ?=? DBVPG 4489T), Bandoniozyma aquatica sp. nov. (UFMG-DH4.20T ?=? CBS 12527T ?=? ATCC MYA-4876T), Bandoniozyma complexa sp. nov. (CBS 11570T ?=? ATCC MYA-4603T ?=? MA28aT), Bandoniozyma fermentans sp. nov. (CBS 12399T ?=? NU7M71T ?=? BCRC 23267T), Bandoniozyma glucofermentans sp. nov. (CBS 10381T ?=? NRRL Y-48076T ?=? ATCC MYA-4760T ?=? BG 02-7-15-015A-1-1T), Bandoniozyma tunnelae sp. nov. (CBS 8024T ?=? DBVPG 7000T), and Bandoniozyma visegradensis sp. nov. (CBS 12505T ?=? NRRL Y-48783T ?=? NCAIM Y.01952T). PMID:23056233

Landell, Melissa Fontes; Crestani, Juliana; Pagnocca, Fernando Carlos; Sette, Lara Durães; Passarini, Michel Rodrigo Zambrano; Rosa, Carlos Augusto; Brandão, Luciana R.; Pimenta, Raphael S.; Ribeiro, José Roberto; Garcia, Karina Marques; Lee, Ching-Fu; Suh, Sung-Oui; Péter, Gábor; Dlauchy, Dénes; Fell, Jack W.; Scorzetti, Gloria; Theelen, Bart; Vainstein, Marilene H.

2012-01-01

286

Microvirga subterranea gen. nov., sp. nov., a moderate thermophile from a deep subsurface Australian thermal aquifer.  

PubMed

A strictly aerobic bacterium, strain Fail4T, was isolated from free-flowing geothermal waters of a bore (bore register no. 3768) tapping the Great Artesian Basin of Australia. The non-sporulating, Gram-negative cells of strain Fail4T produced light-pink colonies, were rod-shaped (1 x 1.5-4 microm) and were motile by a single polar flagellum. Strain Fail4T grew optimally at 41 degrees C at a pH of 7.0 and had an absolute requirement for yeast extract. The strain grew on casein hydrolysate, tryptone, gelatin, xylose and acetate in a medium supplemented with 0.06 or 0.006% yeast extract. Weak acid production was detected from glucose and arabinose. Catalase was produced. Nitrite was produced from nitrate. Strain Fail4T was sensitive to antibiotics that inhibit growth of bacteria. The G + C content was 63.5 +/- 0.5 mol%. Strain Fail4T was a member of the class 'Alphaproteobacteria', phylum Proteobacteria, placed almost equidistantly between Methylobacterium species, Chelatococcus asaccharovorans and Bosea thiooxidans (similarity value of 93%) as its nearest phylogenetic relatives. Phylogenetic and phenotypic evidence suggest that strain Fail4T (=ATCC BAA-295T = DSM 14364T) should be placed as the type strain of a species in a newly created genus, for which the name Microvirga subterranea gen. nov., sp. nov. is proposed. PMID:12710604

Kanso, Sungwan; Patel, Bharat K C

2003-03-01

287

A new captorhinid reptile, Gansurhinus qingtoushanensis, gen. et sp. nov., from the Permian of China.  

PubMed

Captorhinids, a clade of Paleozoic reptiles, are represented by a rich fossil record that extends from the Late Carboniferous into the Late Permian. Representatives of this clade dispersed from the equatorial regions of Laurasia into the temperate regions of Pangea during the Middle and Late Permian. This rich fossil record shows that there was an evolutionary trend from faunivorous to omnivorous and herbivorous feeding habits within this clade. The discovery of well-preserved captorhinid materials in the Middle Permian of China allows us to determine that the new taxon, Gansurhinus qingtoushanensis, gen. et sp. nov, is a member of Moradisaurinae, a clade of captorhinids with multiple tooth rows arranged in parallel. The presence of this moradisaurine in the Middle Permian of south central Asia leads us to suggest that paleogeographic changes during the Permian, with part of what is today China becoming a large peninsula of Pangea, allowed these early reptiles as well as other terrestrial vertebrates to extend their geographic ranges to this region of the Late Paleozoic supercontinent. PMID:21484260

Reisz, Robert R; Liu, Jun; Li, Jin-Ling; Müller, Johannes

2011-05-01

288

Thiopseudomonas denitrificans gen. nov., sp. nov., isolated from anaerobic activated sludge.  

PubMed

A Gram-staining-negative, rod-shaped, motile and facultatively anaerobic bacterial strain, designated X2(T), was isolated from the sludge of an anaerobic, denitrifying, sulfide-removal bioreactor, and found to oxidize sulfide anaerobically with nitrate as electron acceptor. The strain grew at salinities of 0-3?% (w/v) NaCl (optimum, 0-1?%). Growth occurred at pH 6.0-10.0 (optimum, pH 8.0) and 10-37 °C (optimum, 30 °C). The genomic DNA G+C content was 59 mol%. Q-8 and Q-9 were detected as the respiratory quinones. The major fatty acids (>10?%) were C16?:?1?7c and/or C16?:?1?6c, C18?:?1?7c and C16?:?0. The polar lipids consisted of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol and one unidentified phospholipid. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain X2(T) formed a novel clade within the family Pseudomonadaceae, with the highest sequence similarity to Pseudomonas caeni KCTC 22292(T) (93.5?%). On the basis of phenotypic, chemotaxonomic and phylogenetic characteristics, it is proposed that this strain represents novel genus and species within the family Pseudomonadaceae, for which the name Thiopseudomonas denitrificans gen. nov., sp. nov. is proposed. The type strain is X2(T) (?=?CCTCC M 2013362(T)?=?DSM 28679(T)?=?KCTC 42076(T)). PMID:25326445

Tan, Wen-Bo; Jiang, Zhao; Chen, Chuan; Yuan, Ye; Gao, Ling-Fang; Wang, Hong-Fei; Cheng, Juan; Li, Wen-Jun; Wang, Ai-Jie

2015-01-01

289

[Mutations in the GATA4 gen in patients with non-syndromic congenital heart disease].  

PubMed

Congenital heart diseases are defined as any heart or large vessel structural abnormality resulting from abnormal embryonic development, usually described between the 3rd and 10th week of gestation. They comprise the second cause of death in children under a year of age in Colombia, with a prevalence of 7.5-9.5 per 1,000 births, including live and still births. We analyzed 33 heart tissue samples collected at the Clínica Shaio (Bogotá, Colombia). Blood and tissue samples were collected from patients with non-syndromic congenital heart disease. Tissue was isolated near the defect. Electropherograms obtained from samples were analyzed using bioinformatic tools: ChromasPro and ClustalW. The whole gen covering its six exons was analyzed in forward and reverse orientation. We identified 17 mutations, including five non-synonymous sequence changes, one synonymous variant and one variation in the 5' UTR, three intronic changes and seven deletions. We found no evidence of gene GATA4 somatic sequence variants in any of the samples analyzed. PMID:25272520

Orjuela Quintero, Diana Carolina; Núñez, Federico; Caicedo, Víctor; Pachón, Sonia; Salazar Salazar, Marleny

2014-09-01

290

Isolation and classification of a novel marine Bacteroidetes as Frondibacter aureus gen. nov., sp. nov.  

PubMed

A facultatively anaerobic, Gram-stain negative, golden-yellow pigmented, non-motile and rod-shaped bacterium, designated strain A5Q-67(T) was isolated from leaf litter collected at the mangrove estuary of Nakama River, Japan. Phylogenetic analysis based on the 16S rRNA gene sequence revealed the novel isolate was affiliated with the family Flavobacteriaceae of the phylum Bacteroidetes and that it showed highest sequence similarity (94.2 %) to Imtechella halotolerans K1(T). The strain could be differentiated phenotypically from recognized members of the family Flavobacteriaceae. The major fatty acids of strain A5Q-67(T) were identified as iso-C17:0 3-OH, summed feature 1 (iso-C15:1 H and/or C13:0 3-OH) and iso-C15:0 as defined by the MIDI system. The DNA G+C content was determined to be 36.7 mol%, the major respiratory quinone was identified as menaquinone 6 (MK-6) and a polar lipid profile was present consisting of phosphatidylethanolamine, two unidentified aminolipids and an unidentified lipid. From the distinct phylogenetic position and combination of genotypic and phenotypic characteristics, the strain is considered to represent a novel genus for which the name Frondibacter aureus gen. nov., sp. nov. is proposed. The type strain of F. aureus is A5Q-67(T) (=KCTC 32991(T) = NBRC 110021(T)). PMID:25385000

Yoon, Jaewoo; Adachi, Kyoko; Kasai, Hiroaki

2015-02-01

291

Flavicella marina gen. nov., sp. nov., a carotenoid-producing bacterium from surface seawater.  

PubMed

A Gram-stain-negative, non-motile, mesophilic, aerobic, rod- or spherical-shaped bacterium, strain 2A-7T, was isolated from surface seawater at Muroto city, Kochi prefecture, Japan. The strain produced pigment(s), absorption spectrum of which closely resembled that of ?-carotene. Phylogenetic analyses based on 16S rRNA gene sequences showed that the strain fell within the family Flavobacteriaceae and clustered distantly with the type strains of the genus Lutibacter (up to 93.9% similarity). The DNA G+C content was 34.1 mol%. The major fatty acids were iso-C15:0 2-OH and/or C16:1 ?7c, iso-C17:0 3-OH and iso-C15:0 3-OH. The major polar lipids were phosphatidylethanolamine and three unidentified lipids. Menaquinone-6 was detected as the sole isoprenoid quinone. On the basis of phenotypic, genotypic and chemotaxonomic data, strain 2A-7T represents a novel genus and species, for which the name Flavicella marina gen. nov., sp. nov. is proposed. The type strain of Flavicella marina is 2A-7T (=NBRC 110145T=KCTC 42197T). PMID:25481292

Teramoto, Maki; Nishijima, Miyuki

2014-12-01

292

Applicability of the Ge(n,?) Reaction for Estimating Thermal Neutron Flux  

NASA Astrophysics Data System (ADS)

A simple experimental setup was used to measure gamma lines appearing in spectra after interactions of neutrons with Ge in the active volume of a high-purity germanium detector placed in a low-background shield. As source of neutrons a 252Cf spontaneous fission source and different thicknesses of PVC plates were used to slow down neutrons. A cadmiumenvelope was placed over the detector dipstick to identify the effect from slow and fast neutrons. Intensities of several characteristic ?-lines were measured, including intensity of the 139.9 keV ?-line from the reaction 74Ge(n,?)75mGe, usually used for estimation of thermal neutron flux. Obtained results signify that only a part of the detected 139.9 keV ?-rays originate from thermal neutron capture. Some preliminary results indicate that in our detection setup thermal neutron capture contributes with 30% to 50% to the total intensity of the 139.9 keV ?-line, depending on the thickness of the PVC plates.

Nikolov, J.; Medi?, Ž.; Jovan?evi?, N.; Hansman, J.; Todorovi?, N.; Krmar, M.

293

Development of Complexity Science and Technology Tools for NextGen Airspace Research and Applications  

NASA Technical Reports Server (NTRS)

The objective of this research by NextGen AeroSciences, LLC is twofold: 1) to deliver an initial "toolbox" of algorithms, agent-based structures, and method descriptions for introducing trajectory agency as a methodology for simulating and analyzing airspace states, including bulk properties of large numbers of heterogeneous 4D aircraft trajectories in a test airspace -- while maintaining or increasing system safety; and 2) to use these tools in a test airspace to identify possible phase transition structure to predict when an airspace will approach the limits of its capacity. These 4D trajectories continuously replan their paths in the presence of noise and uncertainty while optimizing performance measures and performing conflict detection and resolution. In this approach, trajectories are represented as extended objects endowed with pseudopotential, maintaining time and fuel-efficient paths by bending just enough to accommodate separation while remaining inside of performance envelopes. This trajectory-centric approach differs from previous aircraft-centric distributed approaches to deconfliction. The results of this project are the following: 1) we delivered a toolbox of algorithms, agent-based structures and method descriptions as pseudocode; and 2) we corroborated the existence of phase transition structure in simulation with the addition of "early warning" detected prior to "full" airspace. This research suggests that airspace "fullness" can be anticipated and remedied before the airspace becomes unsafe.

Holmes, Bruce J.; Sawhill, Bruce K.; Herriot, James; Seehart, Ken; Zellweger, Dres; Shay, Rick

2012-01-01

294

Liberibacter crescens gen. nov., sp. nov., the first cultured member of the genus Liberibacter.  

PubMed

The Gram-stain-negative, rod-shaped bacterial isolate BT-1(T) is the closest relative to the genus 'Candidatus Liberibacter' cultured to date. BT-1(T) was recovered from the phloem sap of a defoliating mountain papaya in Puerto Rico. The BT-1(T) 16S rRNA gene sequence showed that strain BT-1(T) is most closely related to members of the genus 'Ca. Liberibacter' sharing 94.7% 16S rRNA gene sequence similarity with 'Ca. Liberibacter americanus' and 'Ca. Liberibacter asiaticus'. Additionally, average nucleotide identity, 16S rRNA gene sequences and conserved protein sequences supported inclusion of the previously described species of the genus 'Ca. Liberibacter' in a genus with BT-1(T). The prominent fatty acids of isolate BT-1(T) were C18 : 1?7c (77.2%), C16 : 0 OH (4.8%), C18 : 0 (4.4%) and C16 : 0 (3.5%). Both physiological and genomic characteristics support the creation of the genus Liberibacter, as well as the novel species Liberibacter crescens gen. nov., sp. nov. with type strain BT-1(T) (?= ATCC BAA-2481(T)?= DSM 26877(T)). PMID:24786353

Fagen, Jennie R; Leonard, Michael T; Coyle, Janelle F; McCullough, Connor M; Davis-Richardson, Austin G; Davis, Michael J; Triplett, Eric W

2014-07-01

295

GenSAA: A tool for advancing satellite monitoring with graphical expert systems  

NASA Technical Reports Server (NTRS)

During numerous contacts with a satellite each day, spacecraft analysts must closely monitor real time data for combinations of telemetry parameter values, trends, and other indications that may signify a problem or failure. As satellites become more complex and the number of data items increases, this task is becoming increasingly difficult for humans to perform at acceptable performance levels. At the NASA Goddard Space Flight Center, fault-isolation expert systems have been developed to support data monitoring and fault detection tasks in satellite control centers. Based on the lessons learned during these initial efforts in expert system automation, a new domain-specific expert system development tool named the Generic Spacecraft Analyst Assistant (GenSAA) is being developed to facilitate the rapid development and reuse of real-time expert systems to serve as fault-isolation assistants for spacecraft analysts. Although initially domain-specific in nature, this powerful tool will support the development of highly graphical expert systems for data monitoring purposes throughout the space and commercial industry.

Hughes, Peter M.; Luczak, Edward C.

1993-01-01

296

Eoetvoesia caeni gen. nov., sp. nov., isolated from an activated sludge system treating coke plant effluent.  

PubMed

A novel bacterium, PB3-7B(T), was isolated on phenol-supplemented inorganic growth medium from a laboratory-scale wastewater purification system that treated coke plant effluent. 16S rRNA gene sequence analysis revealed that strain PB3-7B(T) belonged to the family Alcaligenaceae and showed the highest pairwise sequence similarity to Parapusillimonas granuli Ch07(T) (97.5%), Candidimonas bauzanensis BZ59(T) (97.3%) and Pusillimonas noertemannii BN9(T) (97.2%). Strain PB3-7B(T) was rod-shaped, motile and oxidase- and catalase-positive. The predominant fatty acids were C(16?:?0), C(17?:?0) cyclo, C(19?:?0) cyclo ?8c and C(14?:?0) 3-OH, and the major respiratory quinone was Q-8. The G+C content of the genomic DNA of strain PB3-7B(T) was 59.7 mol%. The novel bacterium can be distinguished from closely related type strains based on its urease activity and the capacity for assimilation of glycerol and amygdalin. On the basis of the phenotypic, chemotaxonomic and molecular data, strain PB3-7B(T) is considered to represent a new genus and species, for which the name Eoetvoesia caeni gen. nov., sp. nov. is proposed. The type strain of Eoetvoesia caeni is PB3-7B(T) (?=?DSM 25520(T)?=?NCAIM B 02512(T)). PMID:24585374

Felföldi, Tamás; Vengring, Anita; Kéki, Zsuzsa; Márialigeti, Károly; Schumann, Peter; Tóth, Erika M

2014-06-01

297

Crenobacter luteus gen. nov., sp. nov., isolated from a hot spring.  

PubMed

A slightly thermophilic, Gram-staining negative and strictly aerobic bacteria, designated strain YIM 78141T, was isolated from a sediment sample collected at Hehua hot spring, Tengchong, Yunnan province, south-west China. Cells of the strain were short-rod-shaped and colonies were yellowish and circular. The strain grew at pH 6.0-10.0 (optimum, pH 8.0-9.0) and 10-55 oC (optimum, 40-50 oC). Phylogenetic analyses based on 16S rRNA gene sequence comparison demonstrated that strain YIM 78141T belongs to the family Neisseriaceae, and it also showed low level similarities of 16S rRNA gene sequences (below 93.4%) compared to all other genera in this family. The only quinone was ubiquinone 8 and the genomic DNA G+C content was 67.3 mol%. Major fatty acids (>5 %) were C12:0, C16:0, C18:1 ?7c and summed feature 3. The polar lipids consisted of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidyl methylethanolamine, phospholipids of unknown structure containing aminoglycophospholipid and three unidentified polar lipids. On the basis of the morphological, physiological and biochemical characteristics as well as genotypic data, this strain should be classified as a novel genus and species of the family Neisseriaceae, for which the name Crenobacter luteus gen. nov., sp. nov. is proposed. The type strain is YIM 78141T (= BCRC 80650T= KCTC 32558T= DSM 27258T). PMID:25332210

Dong, Lei; Ming, Hong; Zhou, En-Min; Yin, Yi-Rui; Liu, Lan; Feng, Hui-Geng; Xian, Wen-Dong; Nie, Guo-Xing; Li, Wen-Jun

2014-10-20

298

Mesotoga prima gen. nov., sp. nov., the first described mesophilic species of the Thermotogales.  

PubMed

A novel mesophilic member of the Thermotogales, strain MesG1.Ag.4.2, was isolated from sediments from Baltimore Harbor, MD, USA. The strain grew optimally at 37 °C with a doubling time of 16.5 h on xylose. Carbohydrates and proteinaceous compounds supported growth and pentoses were preferred over hexoses. The strain was strictly anaerobic and growth was slightly stimulated by thiosulfate, sulfite, and elemental sulfur. The G + C content of its genomic DNA was 45.3 mol%. Strain MesG1.Ag.4.2 and Kosmotoga olearia lipids were analyzed. Strain MesG1.Ag.4.2 contained no long-chain dicarboxylic acids and its major phospholipid was lyso-phosphatidylserine. Long-chain dicarboxylic acids were found in K. olearia and its major phospholipid was cardiolipin, a lipid not yet reported in Thermotogales species. Phylogenetic analyses of its two 16S rRNA genes placed strain MesG1.Ag.4.2 within the bacterial order Thermotogales. Based on the phylogenetic analyses and its low optimal growth temperature, it is proposed that the strain represents a novel species of a new genus within the family Thermotogaceae, order Thermotogales. The name Mesotoga prima gen. nov., sp. nov. is proposed. The type strain of M. prima is MesG1.Ag.4.2 (= DSM 24739 = ATCC BAA-2239). PMID:22411358

Nesbø, Camilla L; Bradnan, Danielle M; Adebusuyi, Abigail; Dlutek, Marlena; Petrus, Amanda K; Foght, Julia; Doolittle, W Ford; Noll, Kenneth M

2012-05-01

299

Functional Allocation for Ground-Based Automated Separation Assurance in NextGen  

NASA Technical Reports Server (NTRS)

As part of an ongoing research effort into functional allocation in a NextGen environment, a controller-in-the-loop study on ground-based automated separation assurance was conducted at NASA Ames' Airspace Operations Laboratory in February 2010. Participants included six FAA front line managers, who are currently certified professional controllers and four recently retired controllers. Traffic scenarios were 15 and 30 minutes long where controllers interacted with advanced technologies for ground-based separation assurance, weather avoidance, and arrival metering. The automation managed the separation by resolving conflicts automatically and involved controllers only by exception, e.g., when the automated resolution would have been outside preset limits. Results from data analyses show that workload was low despite high levels of traffic, Operational Errors did occur but were closely tied to local complexity, and safety acceptability ratings varied with traffic levels. Positive feedback was elicited for the overall concept with discussion on the proper allocation of functions and trust in automation.

Prevot, Thomas; Mercer, Joey; Martin, Lynne; Homola, Jeffrey; Cabrall, Christopher; Brasil, Connie

2010-01-01

300

Pelagitalea pacifica gen. nov., sp. nov., a New Marine Bacterium Isolated from Seawater.  

PubMed

A strictly aerobic, Gram-negative, beige-pigmented, short-rod-shaped, non-motile and chemoheterotrophic bacteria, designated K2-48(T) was isolated from seawater collected in the Western North Pacific Ocean near Japan. Preliminary analysis based on the 16S rRNA gene sequence revealed that the novel isolate was affiliated with the family Oceanospirillaceae within the class Gammaproteobacteria and that it showed the highest sequence similarity (93.7 %) to Neptunomonas qingdaonensis P10-2-4(T). The strain could be differentiated phenotypically from recognized members of the family Oceanospirillaceae. The major fatty acids of strain K2-48(T) were identified as summed feature 3 (C16:1 ?7c and/or iso-C15:0 2-OH) and C16:0 as defined by the MIDI system. The DNA G+C content was determined to be 43.2 mol%, the major respiratory quinone was identified as ubiquinone 9 and a polar lipid profile was present consisting of phosphatidylethanolamine, a phosphatidylglycerol and an unidentified phospolipid. On the basis of polyphasic taxonomic studies, it was concluded that strain K2-48(T) represents a novel genus sp. We propose the name Pelagitalea pacifica gen. nov., sp. nov. for this strain; its type strain is K2-48(T) (=KCCM 90119(T)). PMID:25487119

Lee, Hyunsang; Yoshizawa, Susumu; Kogure, Kazuhiro; Kim, Hyun Soo; Yoon, Jaewoo

2014-12-01

301

Lombardia GENS: a collaborative registry for monogenic diseases associated with stroke  

PubMed Central

Summary The Italian region of Lombardy, with its existing stroke centers and high-technology laboratories, provides a favorable context for studying monogenic diseases associated with stroke. The Lombardia GENS project was set up to create a regional network for the diagnosis of six monogenic diseases associated with stroke: CADASIL, Fabry disease, MELAS, familial and sporadic hemiplegic migraine, hereditary cerebral amyloid angiopathy and Marfan syndrome. The network comprises 36 stroke centers and seven high-technology laboratories, performing molecular analysis. In this context, all stroke/TIA patients fulfilling clinical criteria for monogenic diseases are currently being included in an ongoing study. Demographic, clinical and family data and diagnostic criteria are collected using standardized forms. On the basis of stroke incidence in Lombardy and the reported prevalence of the diseases considered, we expect, during the course of the study, to collect datasets and DNA samples from more than 200 stroke patients suspected of having monogenic diseases. This will allow evaluation of the regional burden and better phenotype characterization of monogenic diseases associated with stroke. PMID:23158583

Bersano, Anna; Baron, Pierluigi; Lanfranconi, Silvia; Trobia, Nadia; Sterzi, Roberto; Motto, Cristina; Comi, Giancarlo; Sessa, Maria; Martinelli-Boneschi, Filippo; Micieli, Giuseppe; Ferrarese, Carlo; Santoro, Patrizia; Parati, Eugenio; Boncoraglio, Giorgio; Padovani, Alessandro; Pezzini, Alessandro; Candelise, Livia

2012-01-01

302

Kozakia baliensis gen. nov., sp. nov., a novel acetic acid bacterium in the alpha-proteobacteria.  

PubMed

Four bacterial strains were isolated from palm brown sugar and ragi collected in Bali and Yogyakarta, Indonesia, by an enrichment culture approach for acetic acid bacteria. Phylogenetic analysis based on 16S rRNA gene sequences showed that the four isolates constituted a cluster separate from the genera Acetobacter, Gluconobacter, Acidomonas, Gluconacetobacter and Asaia with a high bootstrap value in a phylogenetic tree. The isolates had high values of DNA-DNA similarity (78-100%) between one another and low values of the similarity (7-25%) to the type strains of Acetobacter aceti, Gluconobacter oxydans, Gluconacetobacter liquefaciens and Asaia bogorensis. The DNA base composition of the isolates ranged from 56.8 to 57.2 mol% G+C with a range of 0-4 mol%. The major quinone was Q-10. The isolates oxidized acetate and lactate to carbon dioxide and water, but the activity was weak, as with strains of Asaia bogorensis. The isolates differed from Asaia bogorensis strains in phenotypic characteristics. The name Kozakia baliensis gen. nov., sp. nov., is proposed for the four isolates. Strain Yo-3T (= NRIC 0488T = JCM 11301T = IFO 16664T = DSM 14400T) was isolated from palm brown sugar collected in Bali, Indonesia, and was designated as the type strain. PMID:12054243

Lisdiyanti, Puspita; Kawasaki, Hiroko; Widyastuti, Yantyati; Saono, Susono; Seki, Tatsuji; Yamada, Yuzo; Uchimura, Tai; Komagata, Kazuo

2002-05-01

303

The ^3He(e,e'n) Channel in Ay and GE^n Measurements  

NASA Astrophysics Data System (ADS)

Experiments E05-102 and E08-005 involved measurements of electron scattering from polarized ^3He reactions that have been conducted in Jefferson Lab's Hall A this past year. E08-005 measured the Target Single-Spin Asymmetry Ay in the quasi-elastic ^3He^(e,e'n) reaction. Plane wave impulse approximation (PWIA) predicts that Ay should be exactly zero. A previous experiment at Q^2 of 0.2 (GeV/c)^2, where Laget and Nagorny predict Ay to be small, showed a large asymmetry as predicted by Faddeev calculations. The recent experiment measured this asymmetry at Q^2 of 0.1 (GeV/c)^2, 0.5 (GeV/c)^2 and 1.0 (GeV/c)^2. This is the first measurement of Ay at large Q^2, which is another region where Ay is expected to be small. Any non-zero result is an indication of effects beyond impulse approximation. During E05-102, a parasitic measurement of the electric form factor of the neutron (GE^n) was taken using the ^3He(e,e'n) channel at Q^2 of 0.4 (GeV/c)^2, 0.5 (GeV/c)^2 and 1.0 (GeV/c)^2. An overview of these measurements will be presented.

Long, Elena

2009-10-01

304

Reclassification of Promicromonospora pachnodae Cazemier et al. 2004 as Xylanimicrobium pachnodae gen. nov., comb. nov.  

PubMed

The recently described facultatively anaerobic Promicromonospora pachnodae is phylogenetically only moderately related to authentic members of Promicromonospora. P. pachnodae is closely related to Xylanibacterium ulmi and slightly less closely related to Xylanimonas cellulosilytica and Isoptericola variabilis (basonym Cellulosimicrobium variabile). Members of the different genera of Promicromonosporaceae have similar chemotaxonomic properties; they share the same peptidoglycan type (A4alpha) and have similar profiles of polar lipids, menaquinones, fatty acids and whole cell sugars. However, they differ from each other in the detailed amino acid composition of peptidoglycan, a taxonomically significant character that has previously been used in the delineation of actinobacterial genera. Recognized Promicromonospora species and Xylanibacterium ulmi exhibit the L-Lys-L-Ala-D-Glu type, Xylanimonas cellulosilytica and I. variabilis show the L-Lys-D-Asp type, whereas P. pachnodae has the L-Lys-L-Ser-D-Glu type. This property, together with the distinct phylogenetic position of Promicromonospora pachnodae, suggests a novel genus for the xylanolytic organism Xylanimicrobium pachnodae (Cazemier et al. 2004) gen. nov., comb. nov. PMID:15280318

Stackebrandt, Erko; Schumann, Peter

2004-07-01

305

Xylanimonas cellulosilytica gen. nov., sp. nov., a xylanolytic bacterium isolated from a decayed tree (Ulmus nigra).  

PubMed

A bacterial strain, designated XIL07T, isolated from a decayed tree, Ulmus nigra, in Salamanca (Spain) produced abundant cellulases and xylanases. The micro-organism was Gram-positive, aerobic, coccoid and non-motile. Growth was observed on many carbohydrates, including cellulose and xylan as the sole carbon sources. No growth was observed with acetate, citrate, gluconate, inositol, malate or mannitol as carbon sources. The strain showed very weak catalase activity. HPLC analysis of menaquinones revealed two peaks: the main peak corresponded with MK-9(H4) and the smaller one with MK-8(H4). The major fatty acid found was anteiso-C15:0 (12-methyl tetradecanoic acid). Mycolic acids were absent. The polar lipids detected were phosphatidylglycerol, diphosphatidylglycerol, phosphatidylinositol and phosphatidylinositol mannosides. Peptidoglycan type was A4alpha, L-Lys-D-Asp. The cell-wall sugars detected were galactose and rhamnose. The complete 16S rDNA sequence of strain XIL07T was obtained and phylogenetic analysis based on the neighbour-joining method indicated that this bacterium belongs to the high-G + C-content Gram-positive bacteria and that the closest related genera are Promicromonospora and Cellulosimicrobium. The DNA G + C content was 73 mol%. According to the data obtained in this work, this bacterium belongs to a new genus in the family Promicromonosporaceae and the name Xylanimonas cellulosilytica gen. nov., sp. nov. is proposed; the type strain is strain XIL07T (=LMG 20990T =CECT 5975T). PMID:12656159

Rivas, Raúl; Sánchez, Manuel; Trujillo, Martha E; Zurdo-Piñeiro, José Luis; Mateos, Pedro F; Martínez-Molina, Eustoquis; Velázquez, Encarna

2003-01-01

306

Reclassification of Cellulosimicrobium variabile Bakalidou et al. 2002 as Isoptericola variabilis gen. nov., comb. nov.  

PubMed

As already depicted in the original publication, the type strain of the species Cellulosimicrobium variabile Bakalidou et al. 2002, DSM 10177(T), does not cluster unambiguously with the type species, Cellulosimicrobium cellulans DSM 43879(T), in phylogenetic analysis. Strain DSM 10177(T) is moderately related to the recently described species Xylanimonas cellulosilytica, Promicromonospora pachnodae and Xylanibacterium ulmi, forming a lineage that branches between C. cellulans and members of the genus Promicromonospora in most dendrograms generated on the basis of different algorithms and reference strains. The type strains of the two Cellulosimicrobium species resemble each other in morphology, composition of fatty acids, DNA G+C content, phospholipids and the presence of lysine in position 3 of the peptide subunit of peptidoglycan. However, the two strains differ from each other in cell-wall sugars and in the amino acid composition of the A4alpha-type peptidoglycan, which contains serine and aspartic acid in C. cellulans, whereas only aspartic acid is present in the interpeptide bridge of C. variabile. This type is also present in Xylanimonas cellulosilytica XIL07(T), but not in the neighbouring species P. pachnodae DSM 12657(T), which exhibits the L-lys-L-ser-D-Glu type. On the basis of distinct phylogenetic position and the amino acid composition of peptidoglycan, a novel genus and combination for C. variabile, Isoptericola variabilis gen. nov., comb. nov., is proposed. PMID:15143008

Stackebrandt, Erko; Schumann, Peter; Cui, Xiao-Long

2004-05-01

307

Compostimonas suwonensis gen. nov., sp. nov., isolated from spent mushroom compost.  

PubMed

A Gram-positive, aerobic, non-motile, short rod, designated SMC46(T), was isolated from a spent mushroom compost sample collected in the Suwon region, South Korea. 16S rRNA gene sequence analysis revealed that strain SMC46(T) was a member of the family Microbacteriaceae; however, the isolate formed a branch separate from other genera within the family. Sequence similarity between strain SMC46(T) and other members of the family Microbacteriaceae was ?97?%, the highest sequence similarity being with Frigoribacterium faeni 801(T) and Frondihabitans australicus E1HC-02(T) (both 97.0?%). Some chemotaxonomic properties of strain SMC46(T) were consistent with those of the family Microbacteriaceae: MK-11 and MK-12 as the predominant menaquinones, anteiso-C(15?:?0), iso-C(16?:?0) and anteiso-C(17?:?0) as the major cellular fatty acids and diphosphatidylglycerol, phosphatidylglycerol and an unidentified glycolipid as the polar lipids. However, strain SMC46(T) contained a B-type peptidoglycan not previously found in the family Microbacteriaceae. The DNA G+C content was 68 mol%. On the basis of phenotypic, chemotaxonomic and phylogenetic distinctiveness, strain SMC46(T) was considered to represent a novel genus and species in the family Microbacteriaceae, for which the name Compostimonas suwonensis gen. nov., sp. nov. is proposed. The type strain of the type species is SMC46(T) (?=?KACC 13354(T) ?=?NBRC 106304(T)). PMID:22140170

Kim, Soo-Jin; Tamura, Tomohiko; Hamada, Moriyuki; Ahn, Jae-Hyung; Weon, Hang-Yeon; Park, In-Cheol; Suzuki, Ken-Ichiro; Kwon, Soon-Wo

2012-10-01

308

Lysinimicrobium mangrovi gen. nov., sp. nov., an actinobacterium isolated from the rhizosphere of a mangrove.  

PubMed

A novel strain of Gram-staining-positive bacterium, designated HI08-69(T), was isolated from the rhizosphere of a mangrove on Iriomote Island, Japan, and its taxonomic position was investigated by a polyphasic approach. The strain had peptidoglycan of the A4? type, with lysine as the diagnostic diamino acid. The predominant menaquinone was demethylmenaquinone DMK-9(H(4)) and the major fatty acids were anteiso-C(15:0), anteiso-C(17:0) and C(16:0). The major polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol and an unidentified polar lipid but minor amounts of other polar lipids were also detected. The genomic DNA G+C content of strain HI08-69(T) was 71.7 mol%. In phylogenetic analyses based on 16S rRNA gene sequences, the novel strain and members of the genus Demequina formed a monophyletic cluster, with pairwise sequence similarities of 95.6-96.8%. However, strain HI08-69(T) was clearly distinguishable from all established members of the genus Demequina in terms of several chemotaxonomic characteristics. On the basis of the phenotypic and genotypic characteristics, strain HI08-69(T) represents a novel species in a new genus for which the name Lysinimicrobium mangrovi gen. nov., sp. nov. is proposed. The type strain of the type species is HI08-69(T) (?=?NBRC 105856(T)?=?DSM 24868(T)). PMID:21930679

Hamada, Moriyuki; Tamura, Tomohiko; Yamamura, Hideki; Suzuki, Ken-ichiro; Hayakawa, Masayuki

2012-08-01

309

Leisingera methylohalidivorans gen. nov., sp. nov., a marine methylotroph that grows on methyl bromide  

USGS Publications Warehouse

A marine methylotroph, designated strain MB2T, was isolated for its ability to grow on methyl bromide as a sole carbon and energy source. Methyl chloride and methyl iodide also supported growth, as did methionine and glycine betaine. A limited amount of growth was observed with dimethyl sulfide. Growth was also noted with unidentified components of the complex media marine broth 2216, yeast extract and Casamino acids. No growth was observed on methylated amines, methanol, formate, acetate, glucose or a variety of other substrates. Growth on methyl bromide and methyl iodide resulted in their oxidation to CO2 with stoichiometric release of bromide and iodide, respectively. Strain MB2T exhibited growth optima at NaCl and Mg2+ concentrations similar to that of seawater. Phylogenetic analysis of the 16S rDNA sequence placed this strain in the ??-Proteobacteria in proximity to the genera Ruegeria and Roseobacter. It is proposed that strain MB2T (= ATCC BAA-92T = DSM 14336T) be designated Leisingera methylohalidivorans gen. nov., sp. nov.

Schaefer, J.K.; Goodwin, K.D.; McDonald, I.R.; Murrell, J.C.; Oremland, R.S.

2002-01-01

310

Lombardia GENS: a collaborative registry for monogenic diseases associated with stroke.  

PubMed

The Italian region of Lombardy, with its existing stroke centers and high-technology laboratories, provides a favorable context for studying monogenic diseases associated with stroke. The Lombardia GENS project was set up to create a regional network for the diagnosis of six monogenic diseases associated with stroke: CADASIL, Fabry disease, MELAS, familial and sporadic hemiplegic migraine, hereditary cerebral amyloid angiopathy and Marfan syndrome. The network comprises 36 stroke centers and seven high-technology laboratories, performing molecular analysis. In this context, all stroke/TIA patients fulfilling clinical criteria for monogenic diseases are currently being included in an ongoing study. Demographic, clinical and family data and diagnostic criteria are collected using standardized forms. On the basis of stroke incidence in Lombardy and the reported prevalence of the diseases considered, we expect, during the course of the study, to collect datasets and DNA samples from more than 200 stroke patients suspected of having monogenic diseases. This will allow evaluation of the regional burden and better phenotype characterization of monogenic diseases associated with stroke. PMID:23158583

Bersano, Anna; Baron, Pierluigi; Lanfranconi, Silvia; Trobia, Nadia; Sterzi, Roberto; Motto, Cristina; Comi, Giancarlo; Sessa, Maria; Martinelli-Boneschi, Filippo; Micieli, Giuseppe; Ferrarese, Carlo; Santoro, Patrizia; Parati, Eugenio; Boncoraglio, Giorgio; Padovani, Alessandro; Pezzini, Alessandro; Candelise, Livia

2012-01-01

311

Katatopygia gen. n., a monophyletic branch segregated from Boletina (Diptera, Mycetophilidae)  

PubMed Central

Abstract The genus Katatopygia gen. n. is proposed for the Boletina erythropyga/punctus-group that was first introduced by Garrett (1924, 1925) and currently comprises eight described species. Molecular studies have strongly indicated that this group forms a monophyletic sister-group to a clade consisting of all other Boletina, Coelosia and Gnoriste, and its monophyly is supported by morphological data as well. The new genus includes the following species: Katatopygia antoma (Garrett, 1924), comb. n., Katatopygia antica (Garrett, 1924), comb. n., Katatopygia erythropyga (Holmgren, 1883), comb. n.,Katatopygia hissarica (Zaitzev & Polevoi, 2002), comb. n., Katatopygia magna (Garrett, 1925), comb. n., Katatopygia laticauda (Saigusa, 1968), comb. n., Katatopygia neoerythropyga (Zaitzev & Polevoi, 2002), comb. n. andKatatopygia sahlbergi (Lundström, 1906), comb. n., all transferred from Boletina. Katatopygia sahlbergi is found to be a senior synonym of Boletina punctus Garrett, 1925, syn. n. A phylogeny based on morphological data and using parsimony analysis yielded four most parsimonious trees where the new genus is retrieved as monophyletic with high support. Katatopygia neoerythropyga is found to be the sister-taxon to all other species that form two clades, one with Katatopygia sahlbergi-like species and one with Katatopygia erythropyga-like species. A key to males of Katatopygia is provided. PMID:22451790

Martinsson, Svante; Kjærandsen, Jostein

2012-01-01

312

Taonella mepensis gen. nov., sp. nov., a member of the family Rhodospirillaceae isolated from activated sludge.  

PubMed

A novel Gram-negative, non-spore-forming, rod-shaped strain, H1(T), was isolated from activated sludge by micromanipulation. No close relatives among cultured bacterial isolates were found; phylogenetic analysis based on 16S rRNA gene sequences revealed that strain H1(T) forms a deep single branch in the family Rhodospirillaceae. Cells of strain H1(T) were slightly curved to straight rods (1.2-1.4 × 1.5-1.7 µm) and motile by a single polar flagellum. Strain H1(T) was able to grow in the presence of 0-4 % NaCl and grew optimally at 37 °C and pH 6.0-7.0. Chemotaxonomic analysis revealed that strain H1(T) possessed Q-10 as the predominant ubiquinone and C18 : 1?7c, C16 : 0 and C19 : 0 cyclo ?8c as the major fatty acids. The DNA G+C content of strain H1(T) was 65.1 mol%. Comparative analysis of 16S rRNA gene sequences, and phenotypic and chemotaxonomic data, indicate that strain H1(T) should represent a novel genus and species of the family Rhodospirillaceae. The name Taonella mepensis gen. nov., sp. nov. is proposed. The type strain of Taonella mepensis is H1(T) ( = CICC 10529(T) = CCTCC AB 2012861(T) = KACC 16940(T)). PMID:23223814

Xi, Xue-dong; Dong, Wei-liang; Zhang, Jun; Huang, Yan; Cui, Zhong-li

2013-07-01

313

Emergency Decay Heat Removal in a GEN-IV Gas-Cooled Fast Reactor  

SciTech Connect

A series of transient analyses using the system code RELAP5-3d has been performed to confirm the efficacy of a proposed hybrid active/passive combination approach to the decay heat removal for an advanced 2400 MWt GEN-IV gas-cooled fast reactor. The accident sequence of interest is a station blackout simultaneous with a small break (10 sq.inch/0.645 m{sup 2}) in the reactor vessel. The analyses cover the three phases of decay heat removal in a depressurization accident: (1) forced flow cooling by the power conversion unit (PCU) coast down, (2) active forced flow cooling by a battery powered blower, and (3) passive cooling by natural circulation. The blower is part of an emergency cooling system (ECS) that by design is to sustain passive decay heat removal via natural circulation cooling 24 hours after shutdown. The RELAP5 model includes the helium-cooled reactor, the ECS (primary and secondary side), the PCU with all the rotating machinery (turbine and compressors) and the heat transfer components (recuperator, pre-cooler and inter-cooler), and the guard containment that surrounds the reactor and the PCU. The transient analysis has demonstrated the effectiveness of passive decay heat removal by natural circulation cooling when the guard containment pressure is maintained at or above 800 kPa. (authors)

Cheng, Lap Y.; Ludewig, Hans; Jo, Jae [Brookhaven National Laboratory, P.O. Box 5000, Upton, NY 11973-5000 (United States)

2006-07-01

314

Methods for Estimating Environmental Effects and Constraints on NexGen: High Density Case Study  

NASA Technical Reports Server (NTRS)

This document provides a summary of the current methods developed by Metron Aviation for the estimate of environmental effects and constraints on the Next Generation Air Transportation System (NextGen). This body of work incorporates many of the key elements necessary to achieve such an estimate. Each section contains the background and motivation for the technical elements of the work, a description of the methods used, and possible next steps. The current methods described in this document were selected in an attempt to provide a good balance between accuracy and fairly rapid turn around times to best advance Joint Planning and Development Office (JPDO) System Modeling and Analysis Division (SMAD) objectives while also supporting the needs of the JPDO Environmental Working Group (EWG). In particular this document describes methods applied to support the High Density (HD) Case Study performed during the spring of 2008. A reference day (in 2006) is modeled to describe current system capabilities while the future demand is applied to multiple alternatives to analyze system performance. The major variables in the alternatives are operational/procedural capabilities for airport, terminal, and en route airspace along with projected improvements to airframe, engine and navigational equipment.

Augustine, S.; Ermatinger, C.; Graham, M.; Thompson, T.

2010-01-01

315

Future projections of extreme precipitation using Advanced Weather Generator (AWE-GEN) over Peninsular Malaysia  

NASA Astrophysics Data System (ADS)

A stochastic downscaling methodology known as the Advanced Weather Generator, AWE-GEN, has been tested at four stations in Peninsular Malaysia using observations available from 1975 to 2005. The methodology involves a stochastic downscaling procedure based on a Bayesian approach. Climate statistics from a multi-model ensemble of General Circulation Model (GCM) outputs were calculated and factors of change were derived to produce the probability distribution functions (PDF). New parameters were obtained to project future climate time series. A multi-model ensemble was used in this study. The projections of extreme precipitation were based on the RCP 6.0 scenario (2081-2100). The model was able to simulate both hourly and 24-h extreme precipitation, as well as wet spell durations quite well for almost all regions. However, the performance of GCM models varies significantly in all regions showing high variability of monthly precipitation for both observed and future periods. The extreme precipitation for both hourly and 24-h seems to increase in future, while extreme of wet spells remain unchanged, up to the return periods of 10-40 years.

Syafrina, A. H.; Zalina, M. D.; Juneng, L.

2014-09-01

316

Control control control: a reassessment and comparison of GenBank and chromatogram mtDNA sequence variation in Baltic grey seals (Halichoerus grypus).  

PubMed

Genetic data can provide a powerful tool for those interested in the biology, management and conservation of wildlife, but also lead to erroneous conclusions if appropriate controls are not taken at all steps of the analytical process. This particularly applies to data deposited in public repositories such as GenBank, whose utility relies heavily on the assumption of high data quality. Here we report on an in-depth reassessment and comparison of GenBank and chromatogram mtDNA sequence data generated in a previous study of Baltic grey seals. By re-editing the original chromatogram data we found that approximately 40% of the grey seal mtDNA haplotype sequences posted in GenBank contained errors. The re-analysis of the edited chromatogram data yielded overall similar results and conclusions as the original study. However, a significantly different outcome was observed when using the uncorrected dataset based on the GenBank haplotypes. We therefore suggest disregarding the existing GenBank data and instead using the correct haplotypes reported here. Our study serves as an illustrative example reiterating the importance of quality control through every step of a research project, from data generation to interpretation and submission to an online repository. Errors conducted in any step may lead to biased results and conclusions, and could impact management decisions. PMID:23977362

Fietz, Katharina; Graves, Jeff A; Olsen, Morten Tange

2013-01-01

317

Control Control Control: A Reassessment and Comparison of GenBank and Chromatogram mtDNA Sequence Variation in Baltic Grey Seals (Halichoerus grypus)  

PubMed Central

Genetic data can provide a powerful tool for those interested in the biology, management and conservation of wildlife, but also lead to erroneous conclusions if appropriate controls are not taken at all steps of the analytical process. This particularly applies to data deposited in public repositories such as GenBank, whose utility relies heavily on the assumption of high data quality. Here we report on an in-depth reassessment and comparison of GenBank and chromatogram mtDNA sequence data generated in a previous study of Baltic grey seals. By re-editing the original chromatogram data we found that approximately 40% of the grey seal mtDNA haplotype sequences posted in GenBank contained errors. The re-analysis of the edited chromatogram data yielded overall similar results and conclusions as the original study. However, a significantly different outcome was observed when using the uncorrected dataset based on the GenBank haplotypes. We therefore suggest disregarding the existing GenBank data and instead using the correct haplotypes reported here. Our study serves as an illustrative example reiterating the importance of quality control through every step of a research project, from data generation to interpretation and submission to an online repository. Errors conducted in any step may lead to biased results and conclusions, and could impact management decisions. PMID:23977362

Fietz, Katharina; Graves, Jeff A.; Olsen, Morten Tange

2013-01-01

318

Hydrogenispora ethanolica gen. nov., sp. nov., an anaerobic carbohydrate-fermenting bacterium from anaerobic sludge.  

PubMed

An anaerobic, spore-forming, ethanol-hydrogen-coproducing bacterium, designated LX-BT, was isolated from an anaerobic sludge treating herbicide wastewater. Cells of strain LX-BT were non-motile rods (0.3-0.5×3.0-18.0 µm). Spores were terminal with a bulged sporangium. Growth occurred at 20-50 °C (optimum 37-45 °C), pH 5.0-8.0 (optimum pH 6.0-7.7) and 0-2.5% (w/v) NaCl. The strain could grow fermentatively on glucose, maltose, arabinose, fructose, xylose, ribose, galactose, mannose, raffinose, sucrose, pectin, starch, glycerol, fumarate, tryptone and yeast extract. The major end-products of glucose fermentation were acetate, ethanol and hydrogen. Yeast extract was not required but stimulated growth. Nitrate, sulfate, thiosulfate, elemental sulfur, sulfite, anthraquinone-2,6-disulfonate, fumarate and Fe (III) nitrilotriacetate were not used as terminal electron acceptors. The G+C content of the genomic DNA was 56.1 mol%. The major cellular fatty acids were anteiso-C15:0, iso-C14:0 and C16:0. The most abundant polar lipids of strain LX-BT were diphosphatidylglycerol and phosphatidylglycerol. 16S rRNA gene sequence analysis revealed that it belongs to an as-yet-unidentified taxon at the order- or class-level (OPB54) within the phylum Firmicutes, showing 86.5% sequence similarity to previously described species of the Desulfotomaculum cluster. The name Hydrogenispora ethanolica gen. nov., sp. nov. is proposed to accommodate strain LX-BT (=DSM 25471T=JCM 18117T=CGMCC 1.5175T) as the type strain. PMID:24554637

Liu, Yi; Qiao, Jiang-Tao; Yuan, Xian-Zheng; Guo, Rong-Bo; Qiu, Yan-Ling

2014-05-01

319

Anaerosalibacter bizertensis gen. nov., sp. nov., a halotolerant bacterium isolated from sludge.  

PubMed

A strictly anaerobic, halotolerant and thermotolerant strain, designated C5BEL(T), was isolated in north Tunisia from storage tanks holding waste generated by the recycling of discarded motor oils. Cells of strain C5BEL(T) were Gram-stain-positive, motile by laterally inserted flagella, straight, and spore-forming. Their two major fatty acids were iso-C(15?:?0) and iso-C(15?:?0) dimethyl acetal. Growth was observed at temperatures of 25-55 °C (optimum, 40 °C) and at pH 6-9 (optimum, pH 7.5). The salinity range for growth was 0-100 g l(-1) NaCl (optimum, 5 g l(-1)). Yeast extract was required for growth. Strain C5BEL(T) was heterotrophic, able to use glucose, pyruvate, succinate, yeast extract, bio-trypticase and peptone, but unable to grow on Casamino acids. Sulfate, thiosulfate, sulfite, elemental sulfur, fumarate, nitrate and nitrite were not reduced. The DNA G+C content of strain C5BEL(T) was 31.1 mol%. 16S rRNA gene sequence analysis indicated that strain C5BEL(T) was a member of the family Clostridiaceae, class Clostridia, phylum Firmicutes and was most closely related to Sporanaerobacter acetigenes Lup33(T) (?=?DSM 13106(T)) (92.4?% similarity). On the basis of 16S rRNA gene sequence comparisons and physiological characteristics, strain C5BEL(T) can be classified as a novel species in a new genus, for which the name Anaerosalibacter bizertensis gen. nov., sp. nov. is proposed. The type strain of the type species is C5BEL(T) (?=?DSM 23801(T)?=?JCM 17239(T)). PMID:22140152

Rezgui, Raja; Maaroufi, Abderrazak; Fardeau, Marie-Laure; Ben Ali Gam, Zouhaier; Cayol, Jean-Luc; Ben Hamed, Saïd; Labat, Marc

2012-10-01

320

Stomatobaculum longum gen. nov., sp. nov., an obligately anaerobic bacterium from the human oral cavity.  

PubMed

A strictly anaerobic Gram-stain-variable but positive by structure, non-spore-forming bacterium designated Lachnospiraceae bacterium ACC2 strain DSM 24645(T) was isolated from human subgingival dental plaque. Bacterial cells were 4-40 µm long non-motile rods, often swollen and forming curved filaments up to 200 µm. Cells contained intracellular, poorly crystalline, nanometre-sized iron- and sulfur-rich particles. The micro-organism was able to grow on yeast extract, trypticase peptone, milk, some sugars and organic acids. The major metabolic end-products of glucose fermentation were butyrate, lactate, isovalerate and acetate. The growth temperature and pH ranges were 30-42 °C and 4.9-7.5, respectively. Major fatty acids were C14?:?0, C14?:?0 DMA (dimethyl aldehyde), C16?:?0, C16?:?1?7c DMA. The whole-cell hydrolysate contained meso-diaminopimelic acid, indicating peptidoglycan type A1?. The DNA G+C content was calculated to be 55.05 mol% from the whole-genome sequence and 55.3 mol% as determined by HPLC. There were no predicted genes responsible for biosynthesis of respiratory lipoquinones, mycolic acids and lipopolysaccharides. Genes associated with synthesis of teichoic and lipoteichoic acids, diaminopimelic acid, polar lipids and polyamines were present. According to the 16S rRNA gene sequence phylogeny, strain DSM 24645(T) formed, together with several uncultured oral clones, a separate branch within the family Lachnospiraceae, with the highest sequence similarity to the type strain of Moryella indoligenes at 94.2?%. Based on distinct phenotypic and genotypic characteristics, we suggest that strain DSM 24645(T) represents a novel species in a new genus, for which the name Stomatobaculum longum gen. nov., sp. nov. is proposed. The type strain of Stomatobaculum longum is DSM 24645(T) (?=?HM-480(T); deposited in BEI Resources, an NIH collection managed by the ATCC). PMID:22843721

Sizova, Maria V; Muller, Paul; Panikov, Nicolai; Mandalakis, Manolis; Hohmann, Tine; Hazen, Amanda; Fowle, William; Prozorov, Tanya; Bazylinski, Dennis A; Epstein, Slava S

2013-04-01

321

Aquincola tertiaricarbonis gen. nov., sp. nov., a tertiary butyl moiety-degrading bacterium.  

PubMed

Strains L10(T), L108 and CIP I-2052 were originally obtained from methyl tert-butyl ether (MTBE)-contaminated groundwater and from a wastewater treatment plant, respectively. All share the ability to grow on tert-butanol, an intermediate of MTBE degradation. Cells are strictly aerobic, motile by a polar flagellum and exhibit strong pili formation. Poly beta-hydroxybutyrate (PHB) granules are formed. The DNA G+C content is 69-70.5 mol% and the main ubiquinone is Q-8. The major cellular fatty acids are 16 : 1 cis-9 and 16 : 0 and the only hydroxy fatty acid is 10 : 0 3-OH. The major phospholipids are phosphatidylethanolamine (PE) 16 : 1/16 : 1 and phosphatidylglycerol 16 : 0/16 : 1. A significant amount of PE 17 : 0/16 : 1 is present. The 16S rRNA gene sequences of these strains are almost identical and form a separate line of descent in the Rubrivivax-Roseateles-Leptothrix-Ideonella-Aquabacterium branch of the Betaproteobacteria with 97 % similarity to 16S rRNA genes of the type strains of Rubrivivax gelatinosus, Leptothrix mobilis and Ideonella dechloratans. However, physiological properties, DNA-DNA relatedness values and the phospholipid and cellular fatty acid profiles distinguish the novel isolates from the three closely related genera. Therefore, it is concluded that strains L10(T), L108 and CIP I-2052 represent a new genus and novel species for which the name Aquincola tertiaricarbonis gen. nov., sp. nov., is proposed. The type strain is strain L10(T) (=DSM 18512(T)=CIP 109243(T)). PMID:17551046

Lechner, Ute; Brodkorb, Danny; Geyer, Roland; Hause, Gerd; Härtig, Claus; Auling, Georg; Fayolle-Guichard, Françoise; Piveteau, Pascal; Müller, Roland H; Rohwerder, Thore

2007-06-01

322

Pseudopelagicola gijangensis gen. nov., sp. nov., isolated from the sea squirt Halocynthia roretzi.  

PubMed

A Gram-stain-negative, aerobic, non-motile, rod-shaped bacterial strain, designated YSS-7(T), was isolated from a sea squirt (Halocynthia roretzi) collected from the South Sea of South Korea. Strain YSS-7(T) grew optimally at 25 °C, at pH 7.0-8.0 and in the presence of 2.0% (w/v) NaCl. Phylogenetic trees based on 16S rRNA gene sequences revealed that strain YSS-7(T) clustered with the type strains of Pelagicola litoralis, Planktotalea frisia, Pacificibacter maritimus and Roseovarius marinus. Strain YSS-7(T) exhibited the highest 16S rRNA gene sequence similarity (97.7%) to the type strain of Pelagicola litoralis and sequence similarity of more than 96.0% to the type strains of some other species. Strain YSS-7(T) contained Q-10 as the predominant ubiquinone and C18:1?7c and 11-methyl C18:1?7c as the major fatty acids. The major polar lipids of strain YSS-7(T) were phosphatidylcholine, phosphatidylglycerol, an unidentified aminolipid and an unidentified lipid. The fatty acid and polar lipid profiles of strain YSS-7(T) were different from those of the type strains of phylogenetically related species. The DNA G+C content of strain YSS-7(T) was 55.5 mol%. Other phenotypic properties demonstrated that strain YSS-7(T) is distinguished from phylogenetically related species. On the basis of the data presented, strain YSS-7(T) is considered to represent a novel genus and species, for which the name Pseudopelagicola gijangensis gen. nov., sp. nov. is proposed. The type strain of Pseudopelagicola gijangensis is YSS-7(T) ( = KCTC 42049(T) = CECT 8540(T)). PMID:25048211

Kim, Young-Ok; Park, Sooyeon; Nam, Bo-Hye; Kim, Dong-Gyun; Yoon, Jung-Hoon

2014-10-01

323

Aestuariivita boseongensis gen. nov., sp. nov., isolated from a tidal flat sediment.  

PubMed

A Gram-stain-negative, aerobic, non-motile and coccoid, ovoid or rod-shaped bacterial strain, BS-B2(T), which was isolated from a tidal flat sediment at Boseong in South Korea, was characterized taxonomically. Strain BS-B2(T) grew optimally at 30 °C, at pH 7.0-8.0 and in the presence of 2.0?% (w/v) NaCl. The novel strain exhibited highest 16S rRNA gene sequence similarity (97.4?%) to Marivita geojedonensis DPG-138(T). Neighbour-joining, maximum-likelihood and maximum-parsimony phylogenetic trees based on 16S rRNA gene sequences revealed that strain BS-B2(T) is closely related to Primorskyibacter sedentarius KMM 9018(T), showing 96.5?% sequence similarity. Strain BS-B2(T) contained Q-10 as the predominant ubiquinone and C18?:?1?7c as the predominant fatty acid. The polar lipid profile of strain BS-B2(T) comprised phosphatidylcholine, phosphatidylglycerol, one unidentified aminolipid and one unidentified lipid as major components, and differentiated it from the type strains of P. sedentarius and M. geojedonensis. The DNA G+C content of strain BS-B2(T) was 62.2 mol%. Differential phenotypic properties, together with the phylogenetic and chemotaxonomic data, demonstrated that strain BS-B2(T) can be distinguished from phylogenetically related genera as well as P. sedentarius and M. geojedonensis. On the basis of the data presented, strain BS-B2(T) is considered to represent a novel species of a new genus, for which the name Aestuariivita boseongensis gen. nov., sp. nov. is proposed. The type strain of Aestuariivita boseongensis is BS-B2(T) (?=?KCTC 42052(T)?=?CECT 8532(T)). PMID:24899654

Park, Sooyeon; Won, Sung-Min; Kim, Hyangmi; Park, Doo-Sang; Yoon, Jung-Hoon

2014-09-01

324

Boseongicola aestuarii gen. nov., sp. nov., isolated from a tidal flat sediment.  

PubMed

A Gram-stain-negative, aerobic, non-motile and pleomorphic (coccoid, ovoid or rod-shaped) bacterial strain, BS-W15(T), isolated from a tidal flat sediment at Boseong in South Korea, was characterized taxonomically. Strain BS-W15(T) grew optimally at 25 °C, at pH 7.0-8.0 and in the presence of approximately 2.0% (w/v) NaCl. Neighbour-joining and maximum-likelihood phylogenetic trees, based on 16S rRNA gene sequences, revealed that strain BS-W15(T) joined the cluster comprising the type strains of Profundibacterium mesophilum, Hwanghaeicola aestuarii, M. pelagius and M. salinus, showing 93.5-96.4% sequence similarities. Strain BS-W15(T) contained Q-10 as the predominant ubiquinone and C(18?:?1)?7c as the predominant fatty acid. The polar lipid profile of strain BS-W15(T) contained phosphatidylcholine and phosphatidylglycerol as major components, differentiating it from those of the type strains of P. mesophilum, H. aestuarii, M. pelagius and M. salinus. The DNA G+C content of strain BS-W15(T) was 58.7 mol%. The differential phenotypic properties, together with the phylogenetic and chemotaxonomic data, demonstrate that strain BS-W15(T) is distinct from type strains of P. mesophilum, H. aestuarii, M. pelagius and M. salinus. On the basis of the data presented, strain BS-W15(T) is considered to represent a novel genus and species, for which the name Boseongicola aestuarii gen. nov., sp. nov. is proposed. The type strain is BS-W15(T) (?=?KCTC 32576(T)?=?CECT 8489(T)). PMID:24824636

Park, Sooyeon; Park, Ja-Min; Lee, Keun-Chul; Bae, Kyung Sook; Yoon, Jung-Hoon

2014-08-01

325

Povalibacter uvarum gen. nov., sp. nov., a polyvinyl-alcohol-degrading bacterium isolated from grapes.  

PubMed

Polyvinyl-alcohol-degrading bacteria were isolated from the fruit of a grape in Yokosuka, Japan. The isolated strain, Zumi 37(T), was a Gram-stain-negative, rod-shaped, motile, non-spore-forming and strictly aerobic chemo-organotroph, showing optimal growth at pH 7.5, 30 °C and 0.1% (w/v) NaCl. The major respiratory quinone was Q-8. The predominant fatty acids were iso-C(15?:?0), C(16?:?0) and C(16?:?1)?7c. The major polyamines were homospermidine and putrescine. The predominant polar lipids were diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. The DNA G+C content of the novel strain was 64.2 mol%. 16S rRNA gene sequence comparison revealed that strain Zumi 37(T) belongs to the family Sinobacteraceae within the class Gammaproteobacteria. Steroidobacter denitrificans DSM 18526(T) was the most closely related species with a validly published name, with 98.0% similarity based on 16S rRNA gene sequence comparison (and showed less than 87.5% sequence similarity to members of the genera Alkanibacter, Fontimonas, Hydrocarboniphaga, Nevskia and Solimonas with known 16S rRNA gene sequences). Phenotypes for growth under aerobic conditions and on complex media and major fatty acid composition, differed greatly from those of with comparatively high 16S rRNA gene sequence similarity. Based on phylogenetic, phenotypic and chemotaxonomic evidence, it is proposed that strain Zumi 37(T) represents a novel species in a new genus for which the name Povalibacter uvarum gen. nov., sp. nov. is proposed. The type strain of the type species is Zumi 37(T) (?=?JCM 18749(T)?=?DSM 26723(T)). PMID:24844263

Nogi, Yuichi; Yoshizumi, Masaki; Hamana, Koei; Miyazaki, Masayuki; Horikoshi, Koki

2014-08-01

326

Rhodoluna lacicola gen. nov., sp. nov., a planktonic freshwater bacterium with stream-lined genome.  

PubMed

A pure culture of an actinobacterium previously described as 'Candidatus Rhodoluna lacicola' strain MWH-Ta8 was established and deposited in two public culture collections. Strain MWH-Ta8(T) represents a free-living planktonic freshwater bacterium obtained from hypertrophic Meiliang Bay, Lake Taihu, PR China. The strain was characterized by phylogenetic and taxonomic investigations, as well as by determination of its complete genome sequence. Strain MWH-Ta8(T) is noticeable due to its unusually low values of cell size (0.05 µm(3)), genome size (1.43 Mbp), and DNA G+C content (51.5 mol%). Phylogenetic analyses based on 16S rRNA gene and RpoB sequences suggested that strain MWH-Ta8(T) is affiliated with the family Microbacteriaceae with Pontimonas salivibrio being its closest relative among the currently described species within this family. Strain MWH-Ta8(T) and the type strain of Pontimonas salivibrio shared a 16S rRNA gene sequence similarity of 94.3?%. The cell-wall peptidoglycan of strain MWH-Ta8(T) was of type B2? (B10), containing 2,4-diaminobutyric acid as the diamino acid. The predominant cellular fatty acids were anteiso-C15?:?0 (36.5?%), iso-C16?:?0 (16.5?%), iso-C15?:?0 (15.6?%) and iso-C14?:?0 (8.9?%), and the major (>10?%) menaquinones were MK-11 and MK-12. The major polar lipids were diphosphatidylglycerol, phosphatidylglycerol and two unknown glycolipids. The combined phylogenetic, phenotypic and chemotaxonomic data clearly suggest that strain MWH-Ta8(T) represents a novel species of a new genus in the family Microbacteriaceae, for which the name Rhodoluna lacicola gen. nov., sp. nov. is proposed. The type strain of the type species is MWH-Ta8(T) (?=?DSM 23834(T)?=?LMG 26932(T)). PMID:24984700

Hahn, Martin W; Schmidt, Johanna; Taipale, Sami J; Doolittle, W Ford; Koll, Ulrike

2014-09-01

327

Rhodoluna lacicola gen. nov., sp. nov., a planktonic freshwater bacterium with stream-lined genome  

PubMed Central

A pure culture of an actinobacterium previously described as ‘Candidatus Rhodoluna lacicola’ strain MWH-Ta8 was established and deposited in two public culture collections. Strain MWH-Ta8T represents a free-living planktonic freshwater bacterium obtained from hypertrophic Meiliang Bay, Lake Taihu, PR China. The strain was characterized by phylogenetic and taxonomic investigations, as well as by determination of its complete genome sequence. Strain MWH-Ta8T is noticeable due to its unusually low values of cell size (0.05 µm3), genome size (1.43 Mbp), and DNA G+C content (51.5 mol%). Phylogenetic analyses based on 16S rRNA gene and RpoB sequences suggested that strain MWH-Ta8T is affiliated with the family Microbacteriaceae with Pontimonas salivibrio being its closest relative among the currently described species within this family. Strain MWH-Ta8T and the type strain of Pontimonas salivibrio shared a 16S rRNA gene sequence similarity of 94.3?%. The cell-wall peptidoglycan of strain MWH-Ta8T was of type B2? (B10), containing 2,4-diaminobutyric acid as the diamino acid. The predominant cellular fatty acids were anteiso-C15?:?0 (36.5?%), iso-C16?:?0 (16.5?%), iso-C15?:?0 (15.6?%) and iso-C14?:?0 (8.9?%), and the major (>10?%) menaquinones were MK-11 and MK-12. The major polar lipids were diphosphatidylglycerol, phosphatidylglycerol and two unknown glycolipids. The combined phylogenetic, phenotypic and chemotaxonomic data clearly suggest that strain MWH-Ta8T represents a novel species of a new genus in the family Microbacteriaceae, for which the name Rhodoluna lacicola gen. nov., sp. nov. is proposed. The type strain of the type species is MWH-Ta8T (?=?DSM 23834T?=?LMG 26932T). PMID:24984700

Schmidt, Johanna; Taipale, Sami J.; Doolittle, W. Ford; Koll, Ulrike

2014-01-01

328

Verrucosispora gifhornensis gen. nov., sp. nov., a new member of the actinobacterial family Micromonosporaceae.  

PubMed

A Gram-positive, aerobic, spore-forming actinomycete strain, HR1-2T, was isolated from a peat bog near Gifhorn, Lower Saxony, Germany. Comparative analysis of the 16S rDNA sequence indicated that HR1-2T was phylogenetically related to members of the family Micromonosporaceae, branching adjacent to Spirilliplanes yamanashiensis, Couchioplanes caeruleus, Catenuloplanes japonicus and members of the genus Micromonospora. The affiliation to the family was supported by the presence of family-specific 16S rDNA signature nucleotides, DNA G + C content of 70 mol%, peptidoglycan of type A1 gamma' (directly crossed-linked, presence of glycine, alanine, glutamic acid and mesodiaminopimelic acid in the peptide side-chain), menaquinone MK-9(H4) as the major respiratory lipoquinone, polar lipid composition PII (phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylserine and phosphatidylinositolmannosides) and a glycolyl type of muramic acid. It differed from genera of the family by the lack of arabinose in whole-cell sugars and a unique nucleotide signature stretch between positions 1132 and 1143 (Escherichia coli numbering), 5' CAAUUCGGUUG 3'. Morphologically strain HR1-2T resembles Micromonospora species but can be distinguished from them by the lack of arabinose in whole-cell sugars, the presence of 10-methyl C17:0 fatty acids and a distinct 16S rDNA sequence. Based on the unique combination of morphological, chemotaxonomic and phylogenetic properties a new genus, Verrucosispora gen. nov., is proposed. The type species of this genus is Verrucosispora gifhornensis sp. nov., and the type strain of V. gifhornensis is strain HR1-2T (= DSM 44337T). PMID:9828414

Rheims, H; Schumann, P; Rohde, M; Stackebrandt, E

1998-10-01

329

Maricoccus atlantica gen. nov. sp. nov., isolated from deep sea sediment of the Atlantic Ocean.  

PubMed

A taxonomic study was carried out on strain 22II-S10r2(T), which was isolated from the deep sea sediment of the Atlantic Ocean using oil-degrading enrichment. The bacterium was Gram-negative, oxidase positive and catalase negative, spherical in shape, and motile by polar flagella. Growth was observed at salinities of 0.5-7 % and at temperatures of 10-41 °C. The isolate was capable of aesculin hydrolysis, but unable to reduce nitrate to nitrite or degrade Tween 80 or gelatine. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain 22II-S10r2(T) belonged to the family Ectothiorhodospiraceae, with highest sequence similarity to Thioalkalivibrio sulfidiphilus HL-EbGR7(T) (90.9 % similarity). The principal fatty acids were Sum In Feature 8 (C18:1 ?7c/?6c (29.9 %), C18:1 ?9c (13.5 %), C16:1 ?5c (12.3 %), C12:03OH (6.8 %), C18:1 ?5c (5.7 %) and C16:0 (5.3 %). The G+C content of the chromosomal DNA was 60.7 mol%. The respiratory quinone was determined to be Q-7 (25 %) and Q-8 (75 %). Phosphatidylethanolamine, phosphatidylglycerol, aminophospholipid, glycolipid, three phospholipids and lipid were present. The strain was aerobic, non-phototrophic and non-chemolithoautotrophic. The combined genotypic and phenotypic data show that strain 22II-S10r2(T) represents a novel species within a novel genus, for which the name Maricoccus atlantica gen. nov. sp. nov. is proposed, with the type strain 22II-S10r2(T) (=CGMCC NO.1.12317(T) = LMG 27155(T) = MCCC 1A09384(T)). PMID:24052366

Li, Guizhen; Lai, Qiliang; Liu, Xiupian; Sun, Fengqin; Du, Yaping; Li, Guangyu; Shao, Zongze

2013-12-01

330

Petrimonas sulfuriphila gen. nov., sp. nov., a mesophilic fermentative bacterium isolated from a biodegraded oil reservoir.  

PubMed

A mesophilic, anaerobic, fermentative bacterium, strain BN3(T), was isolated from a producing well of a biodegraded oil reservoir in Canada. Cells were Gram-negative, non-motile rods that did not form spores. The temperature range for growth was 15-40 degrees C, with optimum growth at 37-40 degrees C. The strain grew with up 4 % NaCl, with optimum growth in the absence of NaCl. Tryptone was required for growth. Yeast extract and elemental sulfur stimulated growth. Growth was also enhanced during fermentation of glucose, arabinose, galactose, maltose, mannose, rhamnose, lactose, ribose, fructose, sucrose, cellobiose, lactate, mannitol and glycerol. Acetate, hydrogen and CO(2) were produced during glucose fermentation. Elemental sulfur and nitrate were used as electron acceptors and were reduced to sulfide and ammonium, respectively. The G + C content of the genomic DNA was 40.8 mol%. Phylogenetic analyses of the 16S rRNA gene sequence indicated that the strain was a member of the phylum 'Bacteroidetes', distantly related to the genera Bacteroides and Tannerella (similarity values of less than 90 %). The chemotaxonomic data (fatty acids, polar lipids and quinones composition) also indicated that strain BN3(T) could be clearly distinguished from its closest cultivated relatives. This novel organism possesses phenotypic, chemotaxonomic and phylogenetic traits that do not allow its classification as a member of any previously described genus; therefore, it is proposed that this isolate should be described as a member of a novel species of a new genus, Petrimonas gen. nov., of which Petrimonas sulfuriphila sp. nov. is the type species. The type strain is BN3(T) (= DSM 16547(T) = JCM 12565(T)). PMID:15879242

Grabowski, Agnès; Tindall, Brian J; Bardin, Véronique; Blanchet, Denis; Jeanthon, Christian

2005-05-01

331

Litoribrevibacter albus gen. nov. sp. nov., isolated from coastal seawater, Fujian Province, China.  

PubMed

A Gram-stain negative, short rod-shaped aerobic bacterium with flagella, designated strain Y32(T), was isolated from coastal seawater in Xiamen, Fujian Province of China. 16S rRNA gene sequence comparisons showed that strain Y32(T) is a member of the family Oceanospirillaceae, forming a distinct lineage with species of the genus Litoribacillus. The 16S rRNA gene sequence similarities between strain Y32(T) and other strains were all less than 94.0 %. Strain Y32(T) was found to grow optimally at 28 °C, at pH 7.0-8.0 and in the presence of 4-5 % (w/v) NaCl. The major fatty acids were identified as Summed Feature 3 (comprising C16:1 ?7c and/or C16:1 ?6c, 49.4 %), C16:0 (17.7 %), C14:0 (6.9 %) and C18:1 ?9c (5.4 %). The major respiratory quinone was identified as ubiquinone-8 (Q-8). The major polar lipids were identified as diphosphatidylglycerol, phosphatidylethanolamine and phosphatidylglycerol. The DNA G+C content of strain Y32(T) was determined to be 55.6 mol%. According to its morphology, physiology, fatty acid composition, polar lipids composition and 16S rRNA gene sequence data, strain Y32(T) represents a novel species of a new genus in the family Oceanospirillaceae, for which the name Litoribrevibacter albus gen. nov. sp. nov. is proposed. The type strain of Litoribrevibacter albus is Y32(T) (=MCCC 1F01211(T)=NBRC 110071(T)). PMID:25193025

Li, Yi; Zhu, Hong; Lai, Qiliang; Lei, Xueqian; Zhang, Huajun; Chen, Zhangran; Zheng, Wei; Tian, Yun; Xu, Hong; Zheng, Tianling

2014-11-01

332

Ascidiaceihabitans donghaensis gen. nov., sp. nov., isolated from the golden sea squirt Halocynthia aurantium.  

PubMed

A Gram-stain-negative, aerobic, non-motile and coccoid, ovoid or rod-shaped bacterial strain, designated RSS1-M3(T), was isolated from a golden sea squirt (Halocynthia aurantium) collected from the East Sea, South Korea. Strain RSS1-M3(T) grew optimally at 30 °C, at pH 7.0-8.0 and in presence of 2.0?% (w/v) NaCl. Strain RSS1-M3(T) exhibited the highest 16S rRNA gene sequence similarity (96.55?%) to the type strain of Pelagicola litoralis. Neighbour-joining and maximum-likelihood phylogenetic trees based on 16S rRNA gene sequences revealed that strain RSS1-M3(T) clustered with the type strains, or proposed type strains, of Planktotalea frisia, Pacificibacter maritimus, Roseovarius marinus and Halocynthiibacter namhaensis, showing sequence similarity of 94.88-96.32?%. Strain RSS1-M3(T) contained Q-10 as the predominant ubiquinone and C18?:?1?7c and C16?:?0 as the major fatty acids. The polar lipid profile of strain RSS1-M3(T), containing phosphatidylcholine, phosphatidylglycerol, phosphatidylethanolamine, diphosphatidylglycerol, one unidentified aminolipid and one unidentified lipid as major components, could be distinguished from those of the phylogenetically related genera. The DNA G+C content of strain RSS1-M3(T) was 55.8 mol%. On the basis of the phylogenetic, chemotaxonomic and phenotypic properties, strain RSS1-M3(T) is considered to represent a novel species of a new genus within the class Alphaproteobacteria, for which the name Ascidiaceihabitans donghaensis gen. nov., sp. nov. is proposed. The type strain is RSS1-M3(T) (?=?KCTC 42118(T)?=?CECT 8599(T)). PMID:25205799

Kim, Young-Ok; Park, Sooyeon; Nam, Bo-Hye; Lee, Chu; Park, Ja-Min; Kim, Dong-Gyun; Yoon, Jung-Hoon

2014-12-01

333

Association of Comorbidity Burden With Abnormal Cardiac Mechanics: Findings From the HyperGEN Study  

PubMed Central

Background Comorbidities are common in heart failure (HF), and the number of comorbidities has been associated with poor outcomes in HF patients. However, little is known about the effect of multiple comorbidities on cardiac mechanics, which could impact the pathogenesis of HF. We sought to determine the relationship between comorbidity burden and adverse cardiac mechanics. Methods and Results We performed speckle?tracking analysis on echocardiograms from the HyperGEN study (n=2150). Global longitudinal, circumferential, and radial strain, and early diastolic (e') tissue velocities were measured. We evaluated the association between comorbidity number and cardiac mechanics using linear mixed effects models to account for relatedness among subjects. The mean age was 51±14 years, 58% were female, and 47% were African American. Dyslipidemia and hypertension were the most common comorbidities (61% and 58%, respectively). After adjusting for left ventricular (LV) mass index, ejection fraction, and several potential confounders, the number of comorbidities remained associated with all indices of cardiac mechanics except global circumferential strain (eg, ?=?0.32 [95% CI ?0.44, ?0.20] per 1?unit increase in number of comorbidities for global longitudinal strain; ?=?0.16 [95% CI ?0.20, ?0.11] for e' velocity; P?0.0001 for both comparisons). Results were similar after excluding participants with abnormal LV geometry (P<0.05 for all comparisons). Conclusions Higher comorbidity burden is associated with worse cardiac mechanics, even in the presence of normal LV geometry. The deleterious effect of multiple comorbidities on cardiac mechanics may explain both the high comorbidity burden and adverse outcomes in patients who ultimately develop HF. PMID:24780206

Selvaraj, Senthil; Aguilar, Frank G.; Martinez, Eva E.; Beussink, Lauren; Kim, Kwang?Youn A.; Peng, Jie; Rasmussen?Torvik, Laura; Sha, Jin; Irvin, Marguerite R.; Gu, C. Charles; Lewis, Cora E.; Hunt, Steven C.; Arnett, Donna K.; Shah, Sanjiv J.

2014-01-01

334

Analysis of first proximity voltage on the property of GEN ? image intensifier  

NASA Astrophysics Data System (ADS)

First proximity voltage is the voltage between the cathode of Low Light Level image intensifier and the input surface of Micro-channel plate?MCP?. There are so many factors influencing the image intensifier performance, and the first proximity voltage is one of the most important factors that can not be ignored. Based on the theory analysis and test of different proximity voltage on the gain?signal-to-noise ratio and equivalent background noise, this test has studied on the important performance of Gen III image intensifier effected by the proximity voltage. By the experimental study, the increase of first proximity voltage to a certain extent can improve gain?signal-to-noise ratio and equivalent background noise at the same time. The main cause of this phenomenon is that the increase of proximity voltage can enlarge the incident electron energy, and then improve the quantum efficiency of the incident electron; meantime, stray electron produced by field emission at the action of the electric field of filmed-MCP will lead to equivalent background deterioration. Ultimately we conclude that: 1) Signal to noise is proportional to the square of he cathode sensitivity, increases with the first collision energy of the incident electron, especially at 200-500ev. 2)In the increasing process of voltage from 300v to 800v, the gain of filmed-MCP increases rapidly, but lower again when Upk increases further because of gain self-saturation; lgG and lgUpk are linear relationship, thus the curve can intuitively demonstrate the relationship between them. 3) Stray electron produced by field emission at the action of the electric field of filmed-MCP will lead to equivalent background deterioration, but will not exceed the requirements of technical specifications?2.5×10-7lx?.

Zhang, Ni; Zhu, Yu-feng; Li, Dan; Nie, Jing; Zhang, Tai-min; Liu, Xiao-jian; Liu, Zhao-lu; Cheng, Wei; Fu, Ling-yun

2013-08-01

335

Geothermomicrobium terrae gen. nov., sp. nov., a novel member of the family Thermoactinomycetaceae.  

PubMed

Strains YIM 77562(T) and YIM 77580, two novel Gram-staining-positive, filamentous bacterial isolates, were recovered from the Rehai geothermal field, Tengchong, Yunnan province, south-west China. Good growth was observed at 50-55 °C and pH 7.0. Aerial mycelium was absent on all media tested. Substrate mycelium was well-developed, long and moderately flexuous, and formed abundant, single, warty, ornamented endospores. Phylogenetic analysis of the 16S rRNA gene sequences of the two strains indicated that they belong to the family Thermoactinomycetaceae. Similarity levels between the 16S rRNA gene sequences of the two strains and those of type strains of members of the Thermoactinomycetaceae were 88.33-93.24?%; the highest sequence similarity was with Hazenella coriacea DSM 45707(T). In both strains, the predominant menaquinone was MK-7, the diagnostic diamino acid was meso-diaminopimelic acid and the major cellular fatty acids were iso-C14?:?0, iso-C15?:?0 and iso-C16?:?0. The major polar lipids were diphosphatidylglycerol, phosphatidylmethylethanolamine, unidentified polar lipids and unidentified phospholipids. The genomic DNA G+C contents of strains YIM 77562(T) and YIM 77580 were 45.5 and 44.2 mol%, respectively. DNA-DNA relatedness data suggest that the two isolates represent a single species. Based on phylogenetic analyses and physiological and biochemical characteristics, it is proposed that the two strains represent a single novel species in a new genus, Geothermomicrobium terrae gen. nov., sp. nov. The type strain of Geothermomicrobium terrae is YIM 77562(T) (?=?CCTCC AA 2011022(T)?=?JCM 18057(T)). PMID:24907264

Zhou, En-Min; Yu, Tian-Tian; Liu, Lan; Ming, Hong; Yin, Yi-Rui; Dong, Lei; Tseng, Min; Nie, Guo-Xing; Li, Wen-Jun

2014-09-01

336

Ammoniibacillus agariperforans gen. nov., sp. nov., a new thermophilic agar-degrading bacterium isolated from compost.  

PubMed

A thermophilic agar-degrading bacterium, strain FAB2T, was isolated from sewage sludge compost. According to the phylogenetic analysis based on 16S rRNA gene sequences, strain FAB2T belonged to the family Paenibacillaceae within division Firmicutes. However, FAB2T was different enough in the genus level from closely related species. The percentages of 16S rRNA gene similarity were 90.4% for Thermobacillus xylanilyticus, 91.8% for Paenibacillus barengoltzii, 89.4% for Cohnella lupini, 90.1% for Fontibacillus aquaticus, and 89.0% for Saccharibacillus sacchari. Morphological and physiological analyses revealed that the strain was motile, rod-shaped, gram-positive, and aerobic, able to form oval endospores in swollen sporangia. Ammonium was required as a nitrogen source while nitrate, nitrite, urea and glutamate were not utilized. Catalase and oxidase activities were weakly positive and positive, respectively. The bacterium grew in the temperature range of 50-65 °C and in media with pH values between 7.5 and 9.0. Optimal growth occurred at 60 °C and pH 8.0-8.6. Growth was inhibited at pH ? 7.0 and NaCl concentration ? 2.5%. In chemotaxonomic characters, MK-7 was identified as the dominant menaquinone. Major fatty acids are iso-C16:0 and C16:0. Dominant polar lipids were diphosphatidylglycerol (DPG), phosphatidylglycerol (PG), phosphatidylethanolamine (PE). Phosphatidylcholine (PC) was present as moderate amount. The diamino acid in the cell wall was meso-diaminopimelic acid. The G+C content of the genomic DNA was 49.5 mol% in nucleic acid study. On the basis of genetic and phenotypic characteristics, strain FAB2T (= NBRC 109510T = KCTC 33130T) showed the characteristics suitable for novel genus in family Paenibacillaceae, for which the name Ammoniibacillus agariperforans gen. nov., sp. nov. is proposed. PMID:25404482

Sakai, Masao; Deguchi, Daigo; Hosoda, Akifumi; Kawauchi, Tomohiro; Ikenaga, Makoto

2014-11-17

337

Litoribaculum gwangyangense gen. nov., sp. nov., isolated from a sea-tidal flat sediment.  

PubMed

A Gram-staining-negative, strictly aerobic bacterium, designated strain GY12T, was isolated from a tidal flat of South Korea. Cells were moderately halotolerant, catalase- and oxidase-positive rods with gliding motility, devoid of flagella. Growth of strain GY12T was observed at 15-40°C (optimum, 25-30°C), pH 6.0-8.5 (optimum, pH 7.0-7.5) and 1-5 % (w/v) NaCl (optimum, 1-2 %). The major cellular fatty acids were iso-C15:1 G, iso-C15:0 and iso-C15:0 3-OH. The polar lipids consisted almost entirely of phosphatidylethanolamine, two unidentified amino lipids and two unidentified lipids. The G+C content of the genomic DNA was 34.8 mol % and the only respiratory quinone detected was menaquinone-6 (MK6). Strain GY12T was most closely related to the genera Gaetbulibacter, Flaviramulus, Mariniflexile and Tamlana with 16S rRNA gene sequence similarities of 94-96 %, but phylogenetic inferences based on 16S rRNA gene sequences showed that the strain formed phyletic lineages distinct from them within the family Flavobacteriaceae. On the basis of phenotypic and molecular features, strain GY12T represents a novel genus of the family Flavobacteriaceae, for which the name Litoribaculum gwangyangense gen. nov., sp. nov. is proposed. The type strain GY12T (=KACC 16441T =JCM 18325T). PMID:25368139

Jin, Hyun Mi; Jeon, Che Ok

2014-11-01

338

Jilinibacillus soli gen. nov., sp. nov., a novel member of the family Bacillaceae.  

PubMed

A Gram-positive, aerobic, rod-shaped, motile, endospore-forming bacterium, designated strain A12(T), was isolated from a saline and alkali soil samples in Baicheng City, western of Jilin Province, China. Growth occurred in 15-45 °C (optimum, 30 °C) and at pH 7.0-11.5 (optimum, pH 9.0) and in the presence of 0-10 % (w/v) NaCl [optimum, 1-3 % (w/v) NaCl]. Meso-DAP was present in the peptidoglycan. The predominant menaquinone was MK-7. The major polar lipid profile was phosphatidylethanolamine, phosphatidylglycerol, phosphatidylinositol, phosphatidyl inositol-methyl and phosphotidylinositol dimannosid. The major fatty acid (>10 % of total fatty acids) was anteiso-C15:0. DNA G + C content was 36.2 mol %. The level of 16S rRNA gene sequence similarity between strain A12(T) and other recognized species of the family was below 95.6 %. Phylogenetic analysis based on 16S rRNA gene sequence data indicated that the strain A12(T) fell with the family Bacillaceae and formed a distinct taxon. Based on physiological, chemotaxonomic and phylogenetic analyses, strain A12(T) was considered to represent a novel species of a new genus, for which the name Jilinibacillus soli gen. nov., sp. nov. was proposed. The type strain of Jilinibacillus soli was A12(T) (=GIMN1.014(T) = CCTCC M2011164(T) = KCTC 33417(T)). PMID:25193716

Liu, Jingying; Wang, Xiuran; Li, Meina; Du, Qian; Li, Qiyun; Ma, Pengda

2015-01-01

339

Mumia flava gen. nov., sp. nov., an actinobacterium of the family Nocardioidaceae.  

PubMed

A novel actinobacterial strain, designated MUSC 201T, was isolated from a mangrove soil collected from Kuantan, the capital city of Pahang State in Malaysia. The taxonomic status of this strain was determined using a polyphasic approach. Comparative 16S rRNA gene sequence analysis revealed that strain MUSC 201T represented a novel lineage within the class Actinobacteria. Strain MUSC 201T formed a distinct clade in the family Nocardioidaceae and was most closely related to the members of the genera Nocardioides (16S rRNA gene sequence similarity, 91.9-95.1%), Aeromicrobium (92.7-94.6%), Marmoricola (92.5-93.1%) and Kribbella (91.5-92.4%). The cells of this strain were irregular coccoid to short rod shaped. The peptidoglycan contained ll-diaminopimelic acid as diagnostic diamino acid and the peptidoglycan type was A3?. The peptidoglycan cell wall contained ll-diaminopimelic acid, glycine, glutamic acid and alanine in a molar ratio of 1.5:0.9:1.0:1.5. The cell-wall sugars were galactose and rhamnose. The predominant menaquinone was MK-9(H4). The polar lipids consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphoglycolipid, glycolipid and four unknown phospholipids. The major cellular fatty acids were C18:1?9c (30.8%), C16:0 (24.1%), and 10-methyl C18:0 (13.9%). The DNA G+C content was 72.0±0.1 mol%. On the basis of phylogenetic and phenotypic differences from members of the genera of the family Nocardioidaceae, a novel genus and species, Mumia flava gen. nov., sp. nov. are proposed. The type strain of Mumia flava is MUSC 201T (=DSM 27763T=MCCC 1A00646T=NBRC 109973T). PMID:24449791

Lee, Learn-Han; Zainal, Nurullhudda; Azman, Adzzie-Shazleen; Mutalib, Nurul-Syakima Ab; Hong, Kui; Chan, Kok-Gan

2014-05-01

340

Gelria glutamica gen. nov., sp. nov., a thermophilic, obligately syntrophic, glutamate-degrading anaerobe.  

PubMed

A novel anaerobic, gram-positive, thermophilic, spore-forming, obligately syntrophic, glutamate-degrading bacterium, strain TGO(T), was isolated from a propionate-oxidizing methanogenic enrichment culture. The axenic culture was obtained by growing the bacterium on pyruvate. Cells were rod-shaped and non-motile. The optimal temperature for growth was 50-55 degrees C and growth occurred between 37 and 60 degrees C. The pH range for growth was 5.5-8 with optimum growth at pH 7. In pure culture, strain TGO(T) could grow on pyruvate, lactate, glycerol and several sugars. In co-culture with the hydrogenotrophic methanogen Methanobacterium thermautotrophicum strain Z-245, strain TGO(T) could grow on glutamate, proline and Casamino acids. Glutamate was converted to H2, CO2, propionate and traces of succinate. Strain TGO(T) was not able to utilize sulphate, sulphite, thiosulphate, nitrate or fumarate as electron acceptors. The G+C content was 33.8 mol%. Sequence analysis of the 16S rDNA revealed that strain TGO(T) belongs to the thermophilic, endospore-forming anaerobes, though no close relations were found. Its closest relations were Moorella glycerini (92%) and Moorella thermoacetica (90%). Strain TGOT had an unusually long 16S rDNA of more than 1700 bp. The additional base pairs were found as long loops in the V1, V7 and V9 regions of the 16S rDNA. However, the loops were not found in the 16S rRNA. The name Gelria glutamica gen. nov., sp. nov. is proposed for strain TGO(T). PMID:11931148

Plugge, Caroline M; Balk, Melike; Zoetendal, Erwin G; Stams, Alfons J M

2002-03-01

341

Paradevosia shaoguanensis gen. nov., sp. nov., Isolated from a Coking Wastewater.  

PubMed

A Gram staining negative, rod-shaped, aerobic bacterial strain J5-3(T) with a single polar flagellum was isolated from coking wastewater collected from Shaoguan, Guangdong, China. It was motile and capable of optimal growth at pH 6-8, 30 °C, and 0-2 % (w/v) NaCl. Its predominant fatty acids were 11-methyl C18:1 ?7c (29.2 %), C16:0 (20.6 %), C19:0 cyclo ?8c (18.2 %), C18:0 (11.0 %), and C18:1 ?7c/C18:1 ?6c (10.9 %) when grown on trypticase soy agar. The major polar lipids were diphosphatidylglycerol, phosphatidylglycerol, two unknown glycolipids (GL1, GL2), and two unknown phospholipid (PL1, PL2). The predominant ubiquinone was Q-10, and the genome DNA G+C content was 61.7 mol %. Phylogenetic analysis based on the 16S rRNA gene sequences indicated that strain J5-3(T) belonged to the family Hyphomicrobiaceae in Alphaproteobacteria. It shared the 16S rRNA gene sequence similarities of 93.8-96.1 % with the genus Devosia, 94.5-94.8 % with the genus Pelagibacterium, and <92.0 % with all the other type strains in family Hyphomicrobiaceae. It can be distinguished from the closest phylogenetic neighbors based on several phenotypic and genotypic features, including ?-galactosidase activity, tetracycline susceptibility, major fatty acid composition, polar lipid profile, DNA gyrase B subunit (gyrB) gene sequence, and random-amplified polymorphic DNA profile. Therefore, we consider strain J5-3(T) to represent a novel species of a novel genus within the family Hyphomicrobiaceae, for which the name Paradevosia shaoguanensis gen. nov., sp. nov. is proposed. The type strain of Paradevosia shaoguanensis is J5-3(T) (=CGMCC 1.12430(T) =LMG 27409(T)). PMID:25234654

Geng, Shuang; Pan, Xin-Chi; Mei, Ran; Wang, Ya-Nan; Sun, Ji-Quan; Liu, Xue-Ying; Tang, Yue-Qin; Wu, Xiao-Lei

2015-01-01

342

Feasibility of a Networked Air Traffic Infrastructure Validation Environment for Advanced NextGen Concepts  

NASA Technical Reports Server (NTRS)

Abstract-Next Generation Air Transportation System (NextGen) applications reliant upon aircraft data links such as Automatic Dependent Surveillance-Broadcast (ADS-B) offer a sweeping modernization of the National Airspace System (NAS), but the aviation stakeholder community has not yet established a positive business case for equipage and message content standards remain in flux. It is necessary to transition promising Air Traffic Management (ATM) Concepts of Operations (ConOps) from simulation environments to full-scale flight tests in order to validate user benefits and solidify message standards. However, flight tests are prohibitively expensive and message standards for Commercial-off-the-Shelf (COTS) systems cannot support many advanced ConOps. It is therefore proposed to simulate future aircraft surveillance and communications equipage and employ an existing commercial data link to exchange data during dedicated flight tests. This capability, referred to as the Networked Air Traffic Infrastructure Validation Environment (NATIVE), would emulate aircraft data links such as ADS-B using in-flight Internet and easily-installed test equipment. By utilizing low-cost equipment that is easy to install and certify for testing, advanced ATM ConOps can be validated, message content standards can be solidified, and new standards can be established through full-scale flight trials without necessary or expensive equipage or extensive flight test preparation. This paper presents results of a feasibility study of the NATIVE concept. To determine requirements, six NATIVE design configurations were developed for two NASA ConOps that rely on ADS-B. The performance characteristics of three existing in-flight Internet services were investigated to determine whether performance is adequate to support the concept. Next, a study of requisite hardware and software was conducted to examine whether and how the NATIVE concept might be realized. Finally, to determine a business case, economic factors were evaluated and a preliminary cost-benefit analysis was performed.

McCormack, Michael J.; Gibson, Alec K.; Dennis, Noah E.; Underwood, Matthew C.; Miller,Lana B.; Ballin, Mark G.

2013-01-01

343

Halonotius pteroides gen. nov., sp. nov., an extremely halophilic archaeon recovered from a saltern crystallizer.  

PubMed

Strains 1.15.5(T), 2.27.5, 5.24.4 and 6.14.5 were isolated from a solar saltern. They have flattened, rod-shaped cells and are aerobic, extremely halophilic members of the domain Archaea and family Halobacteriaceae. Cells stained Gram-negative and grew optimally in media around neutral pH and containing 20-24 % (w/v) (strains 1.15.5(T) and 2.27.5) or 22-24 % (w/v) (5.24.4 and 6.14.5) salts. Mg(2+) was not required. The DNA G+C contents of these isolates were all close to 58 mol%, and DNA-DNA cross-hybridization showed a mean relatedness of 77 %. Their 16S rRNA gene sequences differed by no more than 1.6 % from each other. Phylogenetic tree reconstructions with other recognized members of the Halobacteriaceae indicated that they formed a distinct clade, with the closest relative being Halorubrum saccharovorum (86.6-87.6 % 16S rRNA gene sequence similarity to the type strain). The only major polar lipid of all four isolates was the sulfated diglycosyl diether lipid S-DGD-1. By phase-contrast microscopy, the long, flattened cells of these strains often displayed a 'wing-like' shape. The phenotypic and phylogenetic data support the placement of these isolates into a novel species in a new genus within the Halobacteriaceae, for which we propose the name Halonotius pteroides gen. nov., sp. nov. The type strain of Halonotius pteroides is 1.15.5(T) (=JCM 14355(T) =CECT 7525(T) =DSM 18729(T)), with the additional reference strains 2.27.5 (=JCM 14356 =DSM 18671), 5.24.4 (=JCM 14357 =DSM 18673) and 6.14.5 (=JCM 14358 =DSM 18692). PMID:19667389

Burns, David G; Janssen, Peter H; Itoh, Takashi; Kamekura, Masahiro; Echigo, Akinobu; Dyall-Smith, Mike L

2010-05-01

344

Long-range correlation properties of coding and noncoding DNA sequences: GenBank analysis  

NASA Technical Reports Server (NTRS)

An open question in computational molecular biology is whether long-range correlations are present in both coding and noncoding DNA or only in the latter. To answer this question, we consider all 33301 coding and all 29453 noncoding eukaryotic sequences--each of length larger than 512 base pairs (bp)--in the present release of the GenBank to dtermine whether there is any statistically significant distinction in their long-range correlation properties. Standard fast Fourier transform (FFT) analysis indicates that coding sequences have practically no correlations in the range from 10 bp to 100 bp (spectral exponent beta=0.00 +/- 0.04, where the uncertainty is two standard deviations). In contrast, for noncoding sequences, the average value of the spectral exponent beta is positive (0.16 +/- 0.05) which unambiguously shows the presence of long-range correlations. We also separately analyze the 874 coding and the 1157 noncoding sequences that have more than 4096 bp and find a larger region of power-law behavior. We calculate the probability that these two data sets (coding and noncoding) were drawn from the same distribution and we find that it is less than 10(-10). We obtain independent confirmation of these findings using the method of detrended fluctuation analysis (DFA), which is designed to treat sequences with statistical heterogeneity, such as DNA's known mosaic structure ("patchiness") arising from the nonstationarity of nucleotide concentration. The near-perfect agreement between the two independent analysis methods, FFT and DFA, increases the confidence in the reliability of our conclusion.

Buldyrev, S. V.; Goldberger, A. L.; Havlin, S.; Mantegna, R. N.; Matsa, M. E.; Peng, C. K.; Simons, M.; Stanley, H. E.

1995-01-01

345

Akkermansia muciniphila gen. nov., sp. nov., a human intestinal mucin-degrading bacterium.  

PubMed

The diversity of mucin-degrading bacteria in the human intestine was investigated by combining culture and 16S rRNA-dependent approaches. A dominant bacterium, strain MucT, was isolated by dilution to extinction of faeces in anaerobic medium containing gastric mucin as the sole carbon and nitrogen source. A pure culture was obtained using the anaerobic soft agar technique. Strain MucT was a Gram-negative, strictly anaerobic, non-motile, non-spore-forming, oval-shaped bacterium that could grow singly and in pairs. When grown on mucin medium, cells produced a capsule and were found to aggregate. Strain MucT could grow on a limited number of sugars, including N-acetylglucosamine, N-acetylgalactosamine and glucose, but only when a protein source was provided and with a lower growth rate and final density than on mucin. The G + C content of DNA from strain MucT was 47.6 mol%. 16S rRNA gene sequence analysis revealed that the isolate was part of the division Verrucomicrobia. The closest described relative of strain MucT was Verrucomicrobium spinosum (92 % sequence similarity). Remarkably, the 16S rRNA gene sequence of strain MucT showed 99 % similarity to three uncultured colonic bacteria. According to the data obtained in this work, strain MucT represents a novel bacterium belonging to a new genus in subdivision 1 of the Verrucomicrobia; the name Akkermansia muciniphila gen. nov., sp. nov. is proposed; the type strain is MucT (= ATCC BAA-835T = CIP 107961T). PMID:15388697

Derrien, Muriel; Vaughan, Elaine E; Plugge, Caroline M; de Vos, Willem M

2004-09-01

346

Amphiplicatus metriothermophilus gen. nov., sp. nov., a thermotolerant alphaproteobacterium isolated from a hot spring.  

PubMed

A thermotolerant, Gram-strain-negative, non-spore-forming and strictly aerobic bacterium, designated GU51(T), was isolated from Guhai hot spring in Jimsar county, Xinjiang province, north-west China. Each cell of strain GU51(T) consisted of an oval body and two symmetrical long (3-6 µm) prosthecae. The strain moved by polar flagellum. Oxidase and catalase were produced. Strain GU51(T) grew within the ranges of 37-65 °C (optimum 48-50 °C), 0.5-7.5% (w/v) NaCl (optimum 2-3%) and pH 6.0-9.0 (optimum pH 7.5). The major respiratory quinone detected was ubiquinone 10 (U-10) and the genomic DNA G+C content was 66.7±0.4 mol%. Major fatty acids (>5%) were C(16?:?0), C(18?:?1)?7c and 11-methyl C(18?:?1)?7c. The polar lipids consisted of diphosphatidylglycerol, five glycolipids, phosphatidylglycerol and an unknown phospholipid. Phylogenetic analysis showed the closest relatives of strain GU51(T) were members of the genus Parvularcula with 92.3% 16S rRNA gene sequence similarity. On the basis of this polyphasic taxonomic characterization, it is suggested that strain GU51(T) represents a novel species of a new genus in the family 'Parvularculaceae', for which the name Amphiplicatus metriothermophilus gen. nov., sp. nov. is proposed. The type strain of the type species is GU51(T) (?=?CGMCC 1.12710(T)?=?JCM 19779(T)). PMID:24867176

Zhen-Li, Zhang; Xin-Qi, Zhang; Nan, Wu; Wen-Wu, Zhang; Xu-Fen, Zhu; Yi, Cao; Min, Wu

2014-08-01

347

NextGen Flight Deck Surface Trajectory-Based Operations (STBO): Contingency Holds  

NASA Technical Reports Server (NTRS)

The purpose of this pilot-in-the-loop taxi simulation was to investigate a NextGen Surface Trajectory-Based Operations (STBO) concept called "contingency holds." The contingency-hold concept parses a taxi route into segments, allowing an air traffic control (ATC) surface traffic management (STM) system to hold an aircraft when necessary for safety. Under nominal conditions, if the intersection or active runway crossing is clear, the hold is removed, allowing the aircraft to continue taxiing without slowing, thus improving taxi efficiency, while minimizing the excessive brake use, fuel burn, and emissions associated with stop-and-go taxi. However, when a potential traffic conflict exists, the hold remains in place as a fail-safe mechanism. In this departure operations simulation, the taxi clearance included a required time of arrival (RTA) to a specified intersection. The flight deck was equipped with speed-guidance avionics to aid the pilot in safely meeting the RTA. On two trials, the contingency hold was not released, and pilots were required to stop. On two trials the contingency hold was released 15 sec prior to the RTA, and on two trials the contingency hold was released 30 sec prior to the RTA. When the hold remained in place, all pilots complied with the hold. Results also showed that when the hold was released at 15-sec or 30-sec prior to the RTA, the 30-sec release allowed pilots to maintain nominal taxi speed, thus supporting continuous traffic flow; whereas, the 15-sec release did not. The contingency-hold concept, with at least a 30-sec release, allows pilots to improve taxiing efficiency by reducing braking, slowing, and stopping, but still maintains safety in that no pilots "busted" the clearance holds. Overall, the evidence suggests that the contingency-hold concept is a viable concept for optimizing efficiency while maintaining safety.

Bakowski, Deborah Lee; Hooey, Becky Lee; Foyle, David C.; Wolter, Cynthia A.; Cheng, Lara W. S.

2013-01-01

348

Ciceribacter lividus gen. nov., sp. nov., isolated from rhizosphere soil of chick pea (Cicer arietinum L.).  

PubMed

The taxonomic position of strain MSSRFBL1(T), isolated from chickpea rhizosphere soil from Kannivadi, India, was determined. Strain MSSRFBL1(T) formed bluish black colonies, stained Gram-negative and was motile, aerobic, capable of fixing dinitrogen, oxidase-negative and catalase-positive. Q-10 was the major respiratory quinone. Major fatty acids of strain MSSRFBL1(T) were C18?:?1?7c and C19?:?0cyclo?8c. Minor amounts of C18?:?0, C12?:?0, C14?:?0 3-OH, C18?:?0 3-OH, C16?:?0, C16?:?1?6c/C16?:?1?7c, C17?:?0 3-OH and C20?:?1?7c were also present. Polar lipids included diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylmethylethanolamine, phosphatidylcholine and two unidentified glycolipids. Bacteriohopane derivatives (BHD1 and 2), diplopterol, diploptene, bishomohopanediol, adenosylhopane and 2?-methyl bacteriohopanetetrol were the major hopanoids of strain MSSRFBL1(T). The genomic DNA G+C content was 71 mol%. EzTaxon-e-based blast analysis of the 16S rRNA gene indicated the highest similarity of strain MSSRFBL1(T) to Ensifer adhaerens LMG 20216(T) (97.3?%) and other members of the genus Ensifer (<96.9?%) in the family Rhizobiaceae of the class Alphaproteobacteria. However, phylogenetic analysis based on 16S rRNA, recA, thrC and dnaK gene sequences showed distinct out-grouping from the recognized genera of the family Rhizobiaceae. Based on phenotypic, genotypic and chemotaxonomic characters, strain MSSRFBL1(T) represents a novel species in a new genus in the family Rhizobiaceae for which the name Ciceribacter lividus gen. nov., sp. nov. is proposed. The type strain of Ciceribacter lividus is MSSRFBL1(T) (?=?DSM 25528(T)?=?KCTC 32403(T)). PMID:23907221

Kathiravan, R; Jegan, S; Ganga, V; Prabavathy, V R; Tushar, L; Sasikala, Ch; Ramana, Ch V

2013-12-01

349

Limimonas halophila gen. nov., sp. nov., an extremely halophilic bacterium in the family Rhodospirillaceae.  

PubMed

A novel, Gram-staining-negative, non-pigmented, rod-shaped, strictly aerobic, extremely halophilic bacterium, designated strain IA16(T), was isolated from the mud of the hypersaline Lake Aran-Bidgol, in Iran. Cells of strain IA16(T) were not motile. Growth occurred with 2.5-5.2 M NaCl (optimum 3.4 M), at pH 6.0-8.0 (optimum pH 7.0) and at 30-50 °C (optimum 40 °C). Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain IA16(T) belonged in the family Rhodospirillaceae and that its closest relatives were Rhodovibrio sodomensis DSM 9895(T) (91.6?% sequence similarity), Rhodovibrio salinarum NCIMB 2243(T) (91.2?%), Pelagibius litoralis CL-UU02(T) (88.9?%) and Fodinicurvata sediminis YIM D82(T) (88.7?%). The novel strain's major cellular fatty acids were C19?:?0 cyclo ?7c and C18?:?0 and its polar lipid profile comprised phosphatidylglycerol, diphosphatidylglycerol, four unidentified phospholipids, three unidentified aminolipids and two other unidentified lipids. The cells of strain IA16(T) contained the ubiquinone Q-10. The G+C content of the novel strain's genomic DNA was 67.0 mol%. The physiological, biochemical and phylogenetic differences between strain IA16(T) and other previously described taxa indicate that the strain represents a novel species in a new genus within the family Rhodospirillaceae, for which the name Limimonas halophila gen. nov., sp. nov. is proposed. The type strain of Limimonas halophila is IA16(T) (?=?IBRC-M 10018(T) ?=?DSM 25584(T)). PMID:22904212

Amoozegar, Mohammad Ali; Makhdoumi-Kakhki, Ali; Ramezani, Mohadaseh; Nikou, Mahdi Moshtaghi; Fazeli, Seyed Abolhassan Shahzadeh; Schumann, Peter; Ventosa, Antonio

2013-04-01

350

Assessment of Response to Lithium Maintenance Treatment in Bipolar Disorder: A Consortium on Lithium Genetics (ConLiGen) Report  

PubMed Central

Objective The assessment of response to lithium maintenance treatment in bipolar disorder (BD) is complicated by variable length of treatment, unpredictable clinical course, and often inconsistent compliance. Prospective and retrospective methods of assessment of lithium response have been proposed in the literature. In this study we report the key phenotypic measures of the “Retrospective Criteria of Long-Term Treatment Response in Research Subjects with Bipolar Disorder” scale currently used in the Consortium on Lithium Genetics (ConLiGen) study. Materials and Methods Twenty-nine ConLiGen sites took part in a two-stage case-vignette rating procedure to examine inter-rater agreement [Kappa (?)] and reliability [intra-class correlation coefficient (ICC)] of lithium response. Annotated first-round vignettes and rating guidelines were circulated to expert research clinicians for training purposes between the two stages. Further, we analyzed the distributional properties of the treatment response scores available for 1,308 patients using mixture modeling. Results Substantial and moderate agreement was shown across sites in the first and second sets of vignettes (??=?0.66 and ??=?0.54, respectively), without significant improvement from training. However, definition of response using the A score as a quantitative trait and selecting cases with B criteria of 4 or less showed an improvement between the two stages (ICC1?=?0.71 and ICC2?=?0.75, respectively). Mixture modeling of score distribution indicated three subpopulations (full responders, partial responders, non responders). Conclusions We identified two definitions of lithium response, one dichotomous and the other continuous, with moderate to substantial inter-rater agreement and reliability. Accurate phenotypic measurement of lithium response is crucial for the ongoing ConLiGen pharmacogenomic study. PMID:23840348

Manchia, Mirko; Adli, Mazda; Akula, Nirmala; Ardau, Raffaella; Aubry, Jean-Michel; Backlund, Lena; Banzato, Claudio EM.; Baune, Bernhard T.; Bellivier, Frank; Bengesser, Susanne; Biernacka, Joanna M.; Brichant-Petitjean, Clara; Bui, Elise; Calkin, Cynthia V.; Cheng, Andrew Tai Ann; Chillotti, Caterina; Cichon, Sven; Clark, Scott; Czerski, Piotr M.; Dantas, Clarissa; Zompo, Maria Del; DePaulo, J. Raymond; Detera-Wadleigh, Sevilla D.; Etain, Bruno; Falkai, Peter; Frisén, Louise; Frye, Mark A.; Fullerton, Jan; Gard, Sébastien; Garnham, Julie; Goes, Fernando S.; Grof, Paul; Gruber, Oliver; Hashimoto, Ryota; Hauser, Joanna; Heilbronner, Urs; Hoban, Rebecca; Hou, Liping; Jamain, Stéphane; Kahn, Jean-Pierre; Kassem, Layla; Kato, Tadafumi; Kelsoe, John R.; Kittel-Schneider, Sarah; Kliwicki, Sebastian; Kuo, Po-Hsiu; Kusumi, Ichiro; Laje, Gonzalo; Lavebratt, Catharina; Leboyer, Marion; Leckband, Susan G.; López Jaramillo, Carlos A.; Maj, Mario; Malafosse, Alain; Martinsson, Lina; Masui, Takuya; Mitchell, Philip B.; Mondimore, Frank; Monteleone, Palmiero; Nallet, Audrey; Neuner, Maria; Novák, Tomás; O’Donovan, Claire; Ösby, Urban; Ozaki, Norio; Perlis, Roy H.; Pfennig, Andrea; Potash, James B.; Reich-Erkelenz, Daniela; Reif, Andreas; Reininghaus, Eva; Richardson, Sara; Rouleau, Guy A.; Rybakowski, Janusz K.; Schalling, Martin; Schofield, Peter R.; Schubert, Oliver K.; Schweizer, Barbara; Seemüller, Florian; Grigoroiu-Serbanescu, Maria; Severino, Giovanni; Seymour, Lisa R.; Slaney, Claire; Smoller, Jordan W.; Squassina, Alessio; Stamm, Thomas; Steele, Jo; Stopkova, Pavla; Tighe, Sarah K.; Tortorella, Alfonso; Turecki, Gustavo; Wray, Naomi R.; Wright, Adam; Zandi, Peter P.; Zilles, David; Bauer, Michael; Rietschel, Marcella; McMahon, Francis J.

2013-01-01

351

Cooperative Ge?N Bond Activation in Aluminium-Functionalised Aminogermanes and Spontaneous Imine Elimination via an Intermediate Germyl Cation.  

PubMed

Hydrometallation of iPr2 N?Ge(CMe3 )(C?C?CMe3 )2 with H?M(CMe3 )2 (M=Al, Ga) affords alkenyl-alkynylgermanes in which the Lewis-acidic metal atoms are not coordinated by the amino N atoms but by the ?-C atoms of the ethynyl groups. These interactions result in a lengthening of the Ge?C bonds by approximately 10?pm and a comparably strong deviation of the Ge?C?C angle from linearity (154.3(1)°). This unusual behaviour may be caused by steric shielding of the N atoms. Coordination of the metal atoms by the amino groups is observed upon hydrometallation of Et2 N?Ge(C6 H5 )(C?C?CMe3 )2 , bearing a smaller NR2 group. Strong M?N interactions lead to a lengthening of the Ge?N bonds by 10 to 15?pm and a strong deviation of the M atoms from the MC3 plane by 52 and 47?pm, for Al and Ga, respectively. Dual hydrometallation is achieved only with HAl(CMe3 )2 . In the product, there is a strong Al?N bond with converging Al?N and Ge?N distances (208 vs. 200?pm) and an interaction of the second Al atom to the phenyl group. Addition of chloride anions terminates the latter interaction while the activated Ge?N bond undergoes an unprecedented elimination of EtN?C(H)Me at room temperature, leading to a germane with a Ge?H bond. State-of-the-art DFT calculations reveal that the unique mechanism comprises the transfer of the amino group from Ge to Al to yield an intermediate germyl cation as a strong Lewis acid, which induces ?-hydride elimination, with chloride binding being crucial for providing the thermodynamic driving force. PMID:25521391

Uhl, Werner; Tannert, Jens; Honacker, Christian; Layh, Marcus; Qu, Zheng-Wang; Risthaus, Tobias; Grimme, Stefan

2015-02-01

352

Rhizonema sequoiae n.gen. n.sp. from Coast Redwood Sequoia sempervirens (D.Don) Endl.  

PubMed Central

Rhizonema sequoiae n.gen, u. sp. is described from the roots of Coast Redwood, Sequoia sempervirens (D. Don) Endl., growing near Lake Lagunitas, Marin County, California. Rhizonema females are annulated over their entire bodies, are wholly embedded in host tissue, and secrete an abundant amount of gel material. Mature females do not form a cyst. The vulva is located on a large posterior terminal cone, and the anus is on the dorsal vulval lip. Esophageal glands of the second-stage larvae fill more than half of the body cavity. Tails of the vermiform males are blunt, and a cloacal tubus is present. PMID:19295834

Del Prado Vera, I. Cid; Lownsbery, B. F.; Maggenti, A. R.

1983-01-01

353

Prediction of molecular crystal structures using a genetic algorithm: Validation by GenMol™ on energetic compounds  

NASA Astrophysics Data System (ADS)

This work deals with the problem of finding for a given industrial target the molecule conformation leading to the most efficient crystal polymorph and/or designing unknown crystal packing of new molecules. The originality of the method relies first on constraining the domain of the most probable crystals, before converging towards the predicted packing by a double genetic-refining optimization algorithm. Validation of this approach is discussed on the case study of 46 energetic crystal compounds, using the semi Ab Initio and Molecular Mechanics code GenMol™. This validation shows that all observed structures are retrieved in any circumstances with a relatively high number of good rankings.

Pèpe, G.; Perbost, R.; Courcambeck, J.; Jouanna, P.

2009-06-01

354

Nematode parasites of Puerto Rican tree frogs, Eleutherodactylus spp: two new species and a proposal of Poekilostrongylus gen. nov. (Trichostrongylidae).  

PubMed

Poekilostrongylus puertoricensis gen.nov., sp.nov. is proposed for nematodes recovered from Eleutherodactylus coqui, in Puerto Rico. The new genus is similar to Oswaldocruzia Travassos, 1917, but lacks longitudinal ridges on the cuticle. Oswaldocruzia lenteixierai Viqueras, 1938, is partially redescribed, and a key to the genera of the Oswaldocruziinae is given. Thelandros (Parathelandros) garciai sp.nov. is described from E. antillensis and E. portoricensis. Strongyloides sp. was found in E. antillensis and Aplectana spp. (females) were recovered from E. locustus, E. richmondi and E. coqui. PMID:1128929

Schmidt, G D; Whittaker, F H

1975-04-01

355

Accuracy evaluation of ClimGen weather generator and daily to hourly disaggregation methods in tropical conditions  

NASA Astrophysics Data System (ADS)

Daily and sub-daily weather data are often required for hydrological and environmental modeling. Various weather generator programs have been used to generate synthetic climate data where observed climate data are limited. In this study, a weather data generator, ClimGen, was evaluated for generating information on daily precipitation, temperature, and wind speed at four tropical watersheds located in Hawai`i, USA. We also evaluated different daily to sub-daily weather data disaggregation methods for precipitation, air temperature, dew point temperature, and wind speed at M?kaha watershed. The hydrologic significance values of the different disaggregation methods were evaluated using Distributed Hydrology Soil Vegetation Model. MuDRain and diurnal method performed well over uniform distribution in disaggregating daily precipitation. However, the diurnal method is more consistent if accurate estimates of hourly precipitation intensities are desired. All of the air temperature disaggregation methods performed reasonably well, but goodness-of-fit statistics were slightly better for sine curve model with 2 h lag. Cosine model performed better than random model in disaggregating daily wind speed. The largest differences in annual water balance were related to wind speed followed by precipitation and dew point temperature. Simulated hourly streamflow, evapotranspiration, and groundwater recharge were less sensitive to the method of disaggregating daily air temperature. ClimGen performed well in generating the minimum and maximum temperature and wind speed. However, for precipitation, it clearly underestimated the number of extreme rainfall events with an intensity of >100 mm/day in all four locations. ClimGen was unable to replicate the distribution of observed precipitation at three locations (Honolulu, Kahului, and Hilo). ClimGen was able to reproduce the distributions of observed minimum temperature at Kahului and wind speed at Kahului and Hilo. Although the weather data generation and disaggregation methods were concentrated in a few Hawaiian watersheds, the results presented can be used to similar mountainous location settings, as well as any specific locations aimed at furthering the site-specific performance evaluation of these tested models.

Safeeq, Mohammad; Fares, Ali

2011-12-01

356

search GenBank: interactive orchestration and ad-hoc choreography of Web services in the exploration of the biomedical resources of the National Center For Biotechnology Information  

PubMed Central

Background Due to the growing number of biomedical entries in data repositories of the National Center for Biotechnology Information (NCBI), it is difficult to collect, manage and process all of these entries in one place by third-party software developers without significant investment in hardware and software infrastructure, its maintenance and administration. Web services allow development of software applications that integrate in one place the functionality and processing logic of distributed software components, without integrating the components themselves and without integrating the resources to which they have access. This is achieved by appropriate orchestration or choreography of available Web services and their shared functions. After the successful application of Web services in the business sector, this technology can now be used to build composite software tools that are oriented towards biomedical data processing. Results We have developed a new tool for efficient and dynamic data exploration in GenBank and other NCBI databases. A dedicated search GenBank system makes use of NCBI Web services and a package of Entrez Programming Utilities (eUtils) in order to provide extended searching capabilities in NCBI data repositories. In search GenBank users can use one of the three exploration paths: simple data searching based on the specified user’s query, advanced data searching based on the specified user’s query, and advanced data exploration with the use of macros. search GenBank orchestrates calls of particular tools available through the NCBI Web service providing requested functionality, while users interactively browse selected records in search GenBank and traverse between NCBI databases using available links. On the other hand, by building macros in the advanced data exploration mode, users create choreographies of eUtils calls, which can lead to the automatic discovery of related data in the specified databases. Conclusions search GenBank extends standard capabilities of the NCBI Entrez search engine in querying biomedical databases. The possibility of creating and saving macros in the search GenBank is a unique feature and has a great potential. The potential will further grow in the future with the increasing density of networks of relationships between data stored in particular databases. search GenBank is available for public use at http://sgb.biotools.pl/. PMID:23452691

2013-01-01

357

A new genus and species of isanthid sea anemone (Cnidaria: Anthozoa: Actiniaria) from Chilean Patagonia, Anthoparactis fossii n. gen. et sp  

NASA Astrophysics Data System (ADS)

We describe a new genus and species of sea anemone from Chilean Patagonia. Anthoparactis fossii n. gen. et sp. adds another acontiate genus and species to the family Isanthidae Carlgren, 1938. Anthoparactis n. gen. differs from the other isanthid genera in having the same number of mesenteries distally and proximally, acontia with basitrichs only, and a column with verrucae distally. Anthoparactis fossii n. sp. differs from the most similar species, Isoparactis fionae Lauretta et al., 2013, in the number of cycles of mesenteries and tentacles, structures of the column, colour pattern of the oral disc, cnidae, and geographical distribution. Isanthidae now includes seven genera and 11 species.

Häussermann, Verena; Rodríguez, Estefanía

2014-09-01

358

Kilianites gen. nov., Himalayitidae (Ammonitina) nouveau du Berriasien de la région de Cabra (province de Cordoba, SE Espagne): descendance de Protacanthodiscus  

NASA Astrophysics Data System (ADS)

A new ammonite genus of the himalayitids is described for the group of Hoplites bergeroni Kilian, 1889. Kilianites gen. nov. is only known by its macroconchs (M), until now ascribed to Protacanthodiscus, macroconch of Durangites (pars), or/and Neocosmoceras. The relationships with Protacanthodiscus and Neocosmoceras are discussed, taking into account characters of the ontogenesis and stratigraphic position: Kilianites gen. nov., of the Berriasian Euxinus Zone, Jacobi Subzone (= calpionellids B zone) succeeds the Durangites-Protacanthodiscus acme in the Upper Tithonian Durangites Zone (= A2 and A3 calpionellids subzones).

Enay, Raymond; Boughdiri, Mabrouk; Hégarat, Gérard Le

1998-10-01

359

Lanfrediella amphicirrus gen. nov. sp. nov. Nematotaeniidae (Cestoda: Cyclophyllidea), a tapeworm parasite of Rhinella marina (Linnaeus, 1758) (Amphibia: Bufonidae).  

PubMed

The family Nematotaeniidae, tapeworms commonly found in the small intestines of amphibians and reptiles, includes 27 recognised species distributed among four genera: Bitegmen Jones, Cylindrotaenia Jewell, Distoichometra Dickey and Nematotaenia Lühe. The taxonomy of these cestodes is poorly defined, due in part to the difficulties of observing many anatomical traits. This study presents and describes a new genus and species of nematotaeniid parasite found in cane toads (Rhinella marina) from eastern Brazilian Amazonia. The cestodes were collected during the necropsy of 20 hosts captured in the urban area of Belém, Pará. The specimens were fixed and processed for light microscopy, scanning electron microscopy (SEM) and three-dimensional (3D) reconstruction. Samples were also collected for molecular analyses. The specimens presented a cylindrical body, two testes and paruterine organs. However, they could not be allocated to any of the four existing nematotaeniid genera due to the presence of two each of dorsal compact medullary testes, cirri, cirrus pouches, genital pores, ovaries and vitelline glands per mature segment. Lanfrediella amphicirrus gen. nov. sp. nov. is the first nematotaeniid studied using Historesin analysis, SEM and 3D reconstruction, and it is the second taxon for which molecular data have been deposited in GenBank. PMID:22012220

Melo, Francisco Tiago de Vasconcelos; Giese, Elane Guerreiro; Furtado, Adriano Penha; Soares, Maurílio José; Gonçalves, Evonnildo Costa; Vallinoto, Antonio Carlos Rosário; Santos, Jeannie Nascimento dos

2011-09-01

360

Morphology, morphogenesis, and molecular phylogeny of Paraparentocirrus sibillinensis n. gen., n. sp., a "Stylonychine Oxytrichidae" (Ciliophora, Hypotrichida) without transverse cirri.  

PubMed

A terrestrial oxytrichid ciliate Paraparentocirrus sibillinensis n. gen., n. sp., which was found in soil samples of a beech forest stand within the National Park of Sibillini Mountains, Italy, was investigated using live observation and protargol impregnation. The morphology of interphase, morphogenesis, and molecular phylogeny inferred from SSU rDNA sequences of this ciliate were studied. Paraparentocirrus n. gen., is mainly characterized by a semirigid body, an undulating membrane in the Oxytricha pattern, six fronto-ventral (FV) rows, the absence of transverse cirri, one right and one left row of marginal cirri, four dorsal kineties, two dorsomarginal rows, and caudal cirri at the end of dorsal kinety 4. During morphogenesis, oral primordia develop through the proliferation of basal bodies from some cirri of FV rows 4 and 5, and FV row 6 takes part in the anlagen formation of the proter. The dorsal morphogenesis was typical of oxytrichids, with simple fragmentation of dorsal kinety 3, and the dorsomarginal rows developed from the right marginal row. Phylogenetic analyses based on the SSU rDNA sequences support the classification of this new genus in the stylonychines. PMID:24450360

Kumar, Santosh; Bharti, Daizy; Marinsalti, Silvia; Insom, Emilio; La Terza, Antonietta

2014-01-01

361

Phylotranscriptomics: saturated third codon positions radically influence the estimation of trees based on next-gen data.  

PubMed

Recent advancements in molecular sequencing techniques have led to a surge in the number of phylogenetic studies that incorporate large amounts of genetic data. We test the assumption that analyzing large number of genes will lead to improvements in tree resolution and branch support using moths in the superfamily Bombycoidea, a group with some interfamilial relationships that have been difficult to resolve. Specifically, we use a next-gen data set that included 19 taxa and 938 genes (?1.2M bp) to examine how codon position and saturation might influence resolution and node support among three key families. Maximum likelihood, parsimony, and species tree analysis using gene tree parsimony, on different nucleotide and amino acid data sets, resulted in largely congruent topologies with high bootstrap support compared with prior studies that included fewer loci. However, for a few shallow nodes, nucleotide and amino acid data provided high support for conflicting relationships. The third codon position was saturated and phylogenetic analysis of this position alone supported a completely different, potentially misleading sister group relationship. We used the program RADICAL to assess the number of genes needed to fix some of these difficult nodes. One such node originally needed a total of 850 genes but only required 250 when synonymous signal was removed. Our study shows that, in order to effectively use next-gen data to correctly resolve difficult phylogenetic relationships, it is necessary to assess the effects of synonymous substitutions and third codon positions. PMID:24148944

Breinholt, Jesse W; Kawahara, Akito Y

2013-01-01

362

Polymorphobacter multimanifer gen. nov., sp. nov., a polymorphic bacterium isolated from Antarctic white rock.  

PubMed

A Gram-stain-negative, non-spore-forming, aerobic, oligotrophic bacterium (strain 262-7(T)) was isolated from a crack of white rock collected in the Skallen region of Antarctica. Strain 262-7(T) grew at temperatures between -4 and 30 °C, with optimal growth at 25 °C. The pH range for growth was between pH 6.0 and 9.0, with optimal growth at approximately pH 7.0. The NaCl concentration range allowing growth was between 0.0 and 1.0%, with an optimum of 0.5%. Strain 262-7(T) showed an unprecedented range of morphological diversity in response to growth conditions. Cells grown in liquid medium were circular or ovoid with smooth surfaces in the lag phase. In the exponential phase, ovoid cells with short projections were observed. Cells in the stationary phase possessed long tentacle-like projections intertwined intricately. By contrast, cells grown on agar plate medium or in liquid media containing organic compounds at low concentration exhibited short- and long-rod-shaped morphology. These projections and morphological variations clearly differ from those of previously described bacteria. Ubiquinone 10 was the major respiratory quinone. The major fatty acids were C(17?:?1)?6c (28.2%), C(16?:?1)?7c (22.6%), C(18?:?1)?7c (12.9%) and C(15?:?0) 2-OH (12.3%). The G+C content of genomic DNA was 68.0 mol%. Carotenoids were detected from the cells. Comparative analyses of 16S rRNA gene sequences indicated that strain 262-7(T) belongs to the family Sphingomonadaceae, and that 262-7(T) should be distinguished from known genera in the family Sphingomonadaceae. According to the phylogenetic position, physiological characteristics and unique morphology variations, strain 262-7(T) should be classified as a representative of a novel genus of the family Sphingomonadaceae. Here, a novel genus and species with the name Polymorphobacter multimanifer gen. nov., sp. nov. is proposed (type strain 262-7(T)?=?JCM 18140(T)?=?ATCC BAA-2413(T)). The novel species was named after its morphological diversity and formation of unique projections. PMID:24651306

Fukuda, Wakao; Chino, Yohzo; Araki, Shigeo; Kondo, Yuka; Imanaka, Hiroyuki; Kanai, Tamotsu; Atomi, Haruyuki; Imanaka, Tadayuki

2014-06-01

363

Phycicola gilvus gen. nov., sp. nov., an actinobacterium isolated from living seaweed.  

PubMed

A Gram-positive, aerobic, non-mycelium-forming actinomycete, designated strain SSWW-21(T), was isolated from a living seaweed sample on the coast of Jeju, Republic of Korea. Cells of the organism were rod-shaped or coccoid depending on culture age. Short rods were observed in young cultures, whereas older cultures predominantly consisted of coccoid cells. Rod-shaped cells were motile by means of flagella, but coccoid cells were non-motile. Budding-like cell division was observed. The temperature and pH for growth were 4-30 degrees C and pH 6.1-10.1. Growth occurred in the presence of up to 2 % NaCl. Phylogenetic analyses showed that the organism formed a distinct clade within the family Microbacteriaceae. Comparative 16S rRNA gene sequence analyses showed that strain SSWW-21(T) was related most closely to the type strains of Okibacterium fritillariae (96.8 % similarity), Leifsonia poae (96.8 %) and Agreia bicolorata (96.6 %). Levels of 16S rRNA gene sequence similarity between the new isolate and members of other genera within the family Microbacteriaceae were in the range 93.1-96.3 %. The cell-wall peptidoglycan of strain SSWW-21(T) was of the B-type (2,4-diaminobutyric acid as the diagnostic diamino acid). The acyl type of the muramic acid was acetyl. The predominant menaquinone was MK-11. The polar lipid profile contained phosphatidylcholine, phosphatidylglycerol, phosphatidylinositol and diphosphatidylglycerol. Mycolic acids were not present. The major cellular fatty acids were saturated branched-chain components (anteiso-C(15 : 0) and anteiso-C(17 : 0)). The G+C content of the DNA was 69.8 mol%. On the basis of the phenotypic and phylogenetic data presented, strain SSWW-21(T) is considered to represent a novel species of a new genus within the family Microbacteriaceae, for which the name Phycicola gilvus gen. nov., sp. nov. is proposed. The type strain of Phycicola gilvus is SSWW-21(T) (=KCTC 19185(T) =DSM 18319(T)). PMID:18523172

Lee, Dong Wan; Lee, Jin Mi; Seo, Jae Pyo; Schumann, Peter; Kim, Sae Jae; Lee, Soon Dong

2008-06-01

364

Methylosarcina fibrata gen. nov., sp. nov. and Methylosarcina quisquiliarum sp.nov., novel type 1 methanotrophs.  

PubMed

Two novel species of obligate methane-oxidizing bacteria, isolated from landfill soil, were characterized. Both strains were unusual in that some members of the population grew in irregularly shaped, refractile cell packets that resembled sarcina-like clusters. Electron microscopy revealed that the cell packets were covered with a slime layer and the cells contained many large granular inclusion bodies. The individual cells of each strain were sometimes motile and had differing morphologies. Isolate AML-C10T was always coccoidal in shape, and the cells were covered with extracellular fibrils. Isolate AML-D4T was pleomorphic, changing from rod to coccal form, sometimes exhibiting an unusual fusiform morphology. AML-D4T lacked the extensive fibrillar matrix observed with AML-C10T. Both strains utilized only methane and methanol as carbon sources. In stationary phase, the cells of each strain swelled in size and formed cysts. Aside from morphological differences, strains could also be distinguished from each other by cellular protein patterns, as well as by temperature and pH tolerances. 16S rDNA phylogenetic analysis showed that these are type I methanotrophs (family: Methylococcaceae) most closely related to the Methylobacter/Methylomicrobium clade, although they form a monophyletic grouping supported by moderately high bootstrap values. By 16S rDNA database searches, the most similar species to both isolates were Methylobacter spp. However, partial particulate methane monooxygenase sequence analysis suggested that these bacteria might be more closely related to Methylomicrobium than Methylobacter. Furthermore, cellular fatty acid profiles of the strains more closely resemble those of Methylomicrobium, although the absence of significant levels of 16:1omega5c argues for the uniqueness of these two strains. On the basis of the results described here, it is proposed that a new genus should be created, Methylosarcina gen. nov., harbouring two species, Methylosarcina fibrata sp. nov. (type species) and Methylosarcina quisquiliarum sp. nov. The type strains are AML-C10T (= ATCC 700909T = DSM 13736T) and AML-D4T (= ATCC 700908T = DSM 13737T), respectively. PMID:11321107

Wise, M G; McArthur, J V; Shimkets, L J

2001-03-01

365

Bombella intestini gen. nov., sp. nov., an acetic acid bacterium isolated from bumble bee crop.  

PubMed

In the frame of a bumble bee gut microbiota study, acetic acid bacteria (AAB) were isolated using a combination of direct isolation methods and enrichment procedures. MALDI-TOF MS profiling of the isolates and a comparison of these profiles with profiles of established AAB species identified most isolates as Asaia astilbis or as 'Commensalibacter intestini', except for two isolates (R-52486 and LMG 28161(T)) that showed an identical profile. A nearly complete 16S rRNA gene sequence of strain LMG 28161(T) was determined and showed the highest pairwise similarity to Saccharibacter floricola S-877(T) (96.5?%), which corresponded with genus level divergence in the family Acetobacteraceae. Isolate LMG 28161(T) was subjected to whole-genome shotgun sequencing; a 16S-23S rRNA internal transcribed spacer (ITS) sequence as well as partial sequences of the housekeeping genes dnaK, groEL and rpoB were extracted for phylogenetic analyses. The obtained data confirmed that this isolate is best classified into a new genus in the family Acetobacteraceae. The DNA G+C content of strain LMG 28161(T) was 54.9 mol%. The fatty acid compositions of isolates R-52486 and LMG 28161(T) were similar to those of established AAB species [with C18?:?1?7c (43.1?%) as the major component], but the amounts of fatty acids such as C19?:?0 cyclo ?8c, C14?:?0 and C14?:?0 2-OH enabled to differentiate them. The major ubiquinone was Q-10. Both isolates could also be differentiated from the known genera of AAB by means of biochemical characteristics, such as their inability to oxidize ethanol to acetic acid, negligible acid production from melibiose, and notable acid production from d-fructose, sucrose and d-mannitol. In addition, they produced 2-keto-d-gluconate, but not 5-keto-d-gluconate from d-glucose. Therefore, the name Bombella intestini gen nov., sp. nov. is proposed for this new taxon, with LMG 28161(T) (?=?DSM 28636(T)?=?R-52487(T)) as the type strain of the type species. PMID:25336723

Li, Leilei; Praet, Jessy; Borremans, Wim; Nunes, Olga C; Manaia, Célia M; Cleenwerck, Ilse; Meeus, Ivan; Smagghe, Guy; De Vuyst, Luc; Vandamme, Peter

2015-01-01

366

Desmozoon lepeophtherii n. gen., n. sp., (Microsporidia: Enterocytozoonidae) infecting the salmon louse Lepeophtheirus salmonis (Copepoda: Caligidae)  

PubMed Central

Background A microsporidian was previously reported to infect the crustacean parasite, Lepeophtheirus salmonis (Krøyer, 1837) (Copepoda, Caligidae), on farmed Atlantic salmon (Salmo salar L.) in Scotland. The microsporidian was shown to be a novel species with a molecular phylogenetic relationship to Nucleospora (Enterocytozoonidae), but the original report did not assign it to a genus or species. Further studies examined the development of the microsporidian in L. salmonis using electron microscopy and re-evaluated the molecular findings using new sequence data available for the group. Here we report a full description for the microsporidian and assign it to a new genus and species. Results The microsporidian infects subcuticular cells that lie on the innermost region of the epidermal tissue layer beneath the cuticle and along the internal haemocoelic divisions. The mature spores are sub-spherical with a single nucleus and an isofilar polar filament with 5-8 turns in a double coil. The entire development is in direct contact with the host cell cytoplasm and is polysporous. During early merogony, a diplokaryotic nuclear arrangement exists which is absent throughout the rest of the developmental cycle. Large merogonial plasmodia form which divide to form single uninucleate sporonts. Sporogonial plasmodia were not observed; instead, binucleate sporonts divide to form two sporoblasts. Prior to final division, there is a precocious development of the polar filament extrusion apparatus which is associated with large electron lucent inclusions (ELIs). Analyses of DNA sequences reveal that the microsporidian is robustly supported in a clade with other members of the Enterocytozoonidae and confirms a close phylogenetic relationship with Nucleospora. Conclusion The ultrastructural findings of the precocious development of the polar filament and the presence of ELIs are consistent with those of the Enterocytozoonidae. However, the confirmed presence of an early diplokaryotic stage and a merogonial plasmodium that divides to yield uninucleate sporonts instead of transforming into a sporogonial syncitium, are features not currently associated with the family. Yet, analyses of DNA sequence data clearly place the microsporidian within the Enterocytozoonidae. Therefore, due to the novelty of the copepod host, the ultrastructural findings and the robust nature of the phylogenetic analyses, a new genus should be created within the Enterocytozoonide; Desmozoon lepeophtherii n. gen. n. sp. is proposed. PMID:19943930

2009-01-01

367

Fervidicella metallireducens gen. nov., sp. nov., a thermophilic, anaerobic bacterium from geothermal waters.  

PubMed

A strictly anaerobic, thermophilic bacterium, designated strain AeB(T), was isolated from microbial mats colonizing a run-off channel formed by free-flowing thermal water from a bore well (registered number 17263) of the Great Artesian Basin, Australia. Cells of strain AeB(T) were slightly curved rods (2.5-6.0x1.0 mum) that stained Gram-negative and formed spherical terminal to subterminal spores. The strain grew optimally in tryptone-yeast extract-Casamino acids medium at 50 degrees C (range 37-55 degrees C) and pH 7 (range pH 5-9). Strain AeB(T) grew poorly on yeast extract (0.2 %) and tryptone (0.2 %) as sole carbon sources, which were obligately required for growth on other energy sources. Growth of strain AeB(T) increased in the presence of various carbohydrates and amino acids, but not organic acids. End products detected from glucose fermentation were ethanol, acetate, CO2 and H2. In the presence of 0.2 % yeast extract, iron(III), manganese(IV), vanadium(V) and cobalt(III) were reduced, but not sulfate, thiosulfate, sulfite, elemental sulfur, nitrate or nitrite. Iron(III) was also reduced in the presence of tryptone, peptone, Casamino acids and amyl media (Research Achievement), but not starch, xylan, chitin, glycerol, ethanol, pyruvate, benzoate, lactate, acetate, propionate, succinate, glycine, serine, lysine, threonine, arginine, glutamate, valine, leucine, histidine, alanine, aspartate, isoleucine or methionine. Growth was inhibited by chloramphenicol, streptomycin, tetracycline, penicillin, ampicillin and NaCl concentrations >2 %. The DNA G+C content was 35.4+/-1 mol%, as determined by the thermal denaturation method. 16S rRNA gene sequence analysis indicated that strain AeB(T) is a member of the family Clostridiaceae, class Clostridia, phylum 'Firmicutes', and is positioned approximately equidistantly between the genera Sarcina, Anaerobacter, Caloramator and Clostridium (16S rRNA gene similarity values of 87.8-90.9 %). On the basis of 16S rRNA gene sequence comparisons and physiological characteristics, strain AeB(T) is considered to represent a novel species in a new genus, for which the name Fervidicella metallireducens gen. nov., sp. nov. is proposed; the type strain is AeB(T) (=JCM 15555(T)=KCTC 5667(T)). PMID:19671710

Ogg, Christopher D; Patel, Bharat K C

2010-06-01

368

Salimesophilobacter vulgaris gen. nov., sp. nov., an anaerobic bacterium isolated from paper-mill wastewater.  

PubMed

A novel anaerobic, heterotrophic bacterium, designated strain Zn2(T), was isolated from the wastewater of a paper mill in Zhejiang, China. Cells were gram-type-positive rods, 0.5-0.8 µm wide and 2-4 µm long, and were motile by a lateral flagellum. The ranges of temperature and pH for growth were 10-50 °C and pH 6.0-9.5. Optimal growth occurred at 35 °C and pH 7.3-7.5. The strain did not require NaCl for growth, but its inclusion in the medium improved growth (optimum concentration 6?%). Substrates utilized as sole carbon sources were peptone, tryptone, Casamino acids, D-xylose, salicin, glycerol, formate, acetate and propionate. The main products of carbohydrate fermentation were acetate, formate, propionate and lactate. Elemental sulfur, thiosulfate and Fe(III) were used as electron acceptors, but sulfate, sulfite, nitrate, nitrite and Mn(IV) were not. Growth was inhibited by the addition of 10 µg ampicillin, penicillin, tetracycline or chloramphenicol ml(-1). iso-C15?:?0, C14?:?0, C16?:?0, C16?:?1 cis9 and C18?:?1 cis9 were the major fatty acids. Strain Zn2(T) did not contain any detectable menaquinones or ubiquinones. The main polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylserine, two unknown phospholipids and four unknown glycolipids. The genomic DNA G+C content was 37 mol%, as determined by HPLC. 16S rRNA gene sequence analysis revealed that strain Zn2(T) was a member of family Clostridiaceae, and was most closely related to the type strains of Geosporobacter subterraneus, Thermotalea metallivorans and Caminicella sporogenes, showing 91.2, 90.3 and 91.1?% sequence similarity, respectively. On the basis of its phenotypic and genotypic properties, strain Zn2(T) is suggested to represent a novel species of a new genus, for which the name Salimesophilobacter vulgaris gen. nov., sp. nov. is proposed. The type strain of Salimesophilobacter vulgaris is Zn2(T) (?=?DSM 24770(T) ?=?JCM 17796(T)). PMID:22798649

Zhang, Yan-Zhou; Fang, Ming-Xu; Zhang, Wen-Wu; Li, Tian-Tian; Wu, Min; Zhu, Xu-Fen

2013-04-01

369

The Photosynthetic Apparatus and Its Regulation in the Aerobic Gammaproteobacterium Congregibacter litoralis gen. nov., sp. nov  

PubMed Central

Background There is accumulating evidence that in some marine environments aerobic bacteriochlorophyll a-producing bacteria represent a significant part of the microbial population. The interaction of photosynthesis and carbon metabolism in these interesting bacteria is still largely unknown and requires further investigation in order to estimate their contribution to the marine carbon cycle. Methodology/Principal Findings Here, we analyzed the structure, composition and regulation of the photosynthetic apparatus in the obligately aerobic marine gammaproteobacterium KT71T. Photoheterotrophically grown cells were characterized by a poorly developed lamellar intracytoplasmic membrane system, a type 1 light-harvesting antenna complex and a photosynthetic reaction center associated with a tetraheme cytochrome c. The only photosynthetic pigments produced were bacteriochlorophyll a and spirilloxanthin. Under semiaerobic conditions KT71T cells expressing a photosynthetic apparatus showed a light-dependent increase of growth yield in the range of 1.3–2.5 fold. The expression level of the photosynthetic apparatus depended largely on the utilized substrate, the intermediary carbon metabolism and oxygen tension. In addition, pigment synthesis was strongly influenced by light, with blue light exerting the most significant effect, implicating that proteins containing a BLUF domain may be involved in regulation of the photosynthetic apparatus. Several phenotypic traits in KT71T could be identified that correlated with the assumed redox state of growing cells and thus could be used to monitor the cellular redox state under various incubation conditions. Conclusions/Significance In a hypothetical model that explains the regulation of the photosynthetic apparatus in strain KT71T we propose that the expression of photosynthesis genes depends on the cellular redox state and is maximal under conditions that allow a balanced membrane redox state. So far, bacteria capable of an obligately aerobic, photosynthetic metabolism constitute a unique phenotype within the class Gammaproteobacteria, so that it is justified to propose a new genus and species, Congregibacter litoralis gen. nov, sp. nov., represented by the type strain KT71T (?=?DSM 17192T?=?NBRC 104960T). PMID:19287491

Spring, Stefan; Lünsdorf, Heinrich; Fuchs, Bernhard M.; Tindall, Brian J.

2009-01-01

370

A spatiotemporal data model for incorporating time in geographic information systems (GEN-STGIS)  

NASA Astrophysics Data System (ADS)

Temporal Geographic Information Systems (TGIS) is a new technology, which is being developed to work with Geographic Information Systems (GIS) that deal with geographic phenomena that change over time. The capabilities of TGIS depend on the underlying data model. However, a literature review of current spatiotemporal GIS data models has shown that they are not adequate for managing time when representing temporal data. In addition, the majority of these data models have been designed to support the requirements of specific-purpose applications. In an effort to resolve this problem, the related literature has been explored. A comparative investigation of the current spatiotemporal GIS data models has been made to identify their characteristics, advantages and disadvantages, similarities and differences, and to determine why they do not work adequately. A new object-oriented General-purpose Spatiotemporal GIS (GEN-STGIS) data model is proposed here. This model provides better representation, storage and management of data related to geographic phenomena that change over time and overcomes some of the problems detected in the reviewed data models. The proposed data model has four key benefits. First, it provides the capabilities of a standard vector-based GIS embedded in the 2-D Euclidean space. Second, it includes the two temporal dimensions, valid time and transaction time, supported by temporal databases. Third, it inherits, from the object oriented approach, the flexibility, modularity and ability to handle the complexities introduced by spatial and temporal dimensions. Fourth, it improves the geographic query capabilities of current TGIS with the introduction of the concept of bounding box while providing temporal and spatiotemporal query capabilities. The data model is then evaluated in order to assess its strengths and weaknesses as a spatiotemporal GIS data model, and to determine how well the model satisfies the requirements imposed by TGIS applications. The practicality of the data model is demonstrated by the creation of a TGIS example and the partial implementation of the model using the POET Java software for developing the object-oriented database. the object-oriented database.

Narciso, Flor Eugenia

371

Pseudenhygromyxa salsuginis gen. nov., sp. nov., a myxobacterium isolated from an estuarine marsh.  

PubMed

A myxobacterial strain, designated SYR-2(T), was obtained from a mud sample from an estuarine marsh alongside the Yoshino River, Shikoku, Japan. It had rod-shaped vegetative cells and formed bacteriolytic enlarging colonies or so-called 'swarms' in the agar media. Fruiting-body-like globular to polyhedral cell aggregates and myxospore-like spherical to ellipsoidal cells within them were observed. Those features coincided with the general characteristics of myxobacteria. The strain was mesophilic and strictly aerobic. Growth of SYR-2(T) was observed at 18-40 °C (optimum, 30-35 °C), pH 5.5-8.3 (optimum, pH 7.0-7.5) and with 0.0-2.5?% (w/v) NaCl (optimum, 0.2-1.0?%). Both Mg(2+) and Ca(2+) were essential cations for the growth. The predominant fatty acids were iso-C15?:?0 (43.8?%), iso-C17?:?0 (22.4?%) and iso-C16?:?0 (9.6?%). A C20?:?4 fatty acid [arachidonic acid (4.3?%)], iso-C19?:?0 (1.5?%) and anteiso-acids [ai-C15?:?0 (0.5?%), ai-C17?:?0 (0.3?%)] were also detected. The G+C content of the DNA was 69.7 mol%. The strain contained menaquinone-7 (MK-7) as the major respiratory quinone. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain SYR-2(T) belonged to the suborder Nannocystineae, order Myxococcales in the class Deltaproteobacteria, and the strain was most closely related to two type strains of marine myxobacteria, Enhygromyxa salina SHK-1(T) and Plesiocystis pacifica SIR-1(T), with 96.5?% and 96.0?% similarities, respectively. These characteristics determined in this polyphasic study suggested that strain SYR-2(T) represents a novel species in a new genus of myxobacteria. The name Pseudenhygromyxa salsuginis gen. nov., sp. nov. is proposed to accommodate this isolate, and the type strain of Pseudenhygromyxa salsuginis is SYR-2(T) (?=?NBRC 104351(T)?=?DSM 21377(T)). PMID:22821734

Iizuka, Takashi; Jojima, Yasuko; Hayakawa, Atsushi; Fujii, Takayoshi; Yamanaka, Shigeru; Fudou, Ryosuke

2013-04-01

372

Gen. Phys. II Exam 1 -Chs. 16,17,18A -Electric Fields, Potential, Current Sep. 12, 2013 Name Rec. Instr. Rec. Time  

E-print Network

Gen. Phys. II Exam 1 - Chs. 16,17,18A - Electric Fields, Potential, Current Sep. 12, 2013 Name Rec carrying a current is zero. 11. (2) T F Electric field lines close together indicate weak electric field by 12.0 cm on the x-axis as shown. The charges produce an electric field in the surrounding region

Wysin, Gary

373

Thomas, Robert B. 1989. Piecewise SALT sampling for estimating suspended sediment yields. Gen. Tech. Rep. PSW-114. Berkeley, CA: Pacific Southwest Forest and Range  

E-print Network

#12;Thomas, Robert B. 1989. Piecewise SALT sampling for estimating suspended sediment yields. Gen, U.S. Department of Agriculture; 11 p. A probability sampling method called SALT (Selection At List collection. This form of SALT sampling is called Piecewise SALT sampling. Retrieval Terms: suspended sediment

Standiford, Richard B.

374

Title/Loc/Date: gen tran poly/AMS montrea/ May 2002 Slide # 1 Jo EllisMonaghan, UVM and SMC  

E-print Network

Title/Loc/Date: gen tran poly/AMS montrea/ May 2002 Slide # 1 Jo Ellis­Monaghan, UVM and SMC Irasema Sarmiento, CINVESTAV e­mail: joellis@emba.uvm.edu website: http://academics.smcvt.edu/jellis­monaghan

Ellis-Monaghan, Joanna

375

Hypsilara royi gen. n. and sp. n. (Coleoptera, Elmidae, Larainae) from Southern Venezuela, with a revised key to Larainae of the Western Hemisphere  

E-print Network

Here we describe a new genus, for a new species of riffle beetle, Hypsilara royi gen. n. and sp. n., from the tepui Cerro de la Neblina in southern Venezuela. This new genus can be distinguished from all other laraine genera by its small size (ca. 4...

Maier, Crystal A.; Spangler, Paul J.

2011-07-07

376

Rule-Based Modeling of Biochemical Systems with BioNetGen James R. Faeder, Michael L. Blinov, and William S. Hlavacek  

E-print Network

Chapter 5 Rule-Based Modeling of Biochemical Systems with BioNetGen James R. Faeder, Michael L. Blinov, and William S. Hlavacek Summary Rule-based modeling involves the representation of molecules as structured objects and molecular interac- tions as rules for transforming the attributes of these objects

Faeder, Jim

377

Session B--Estimating Forest Fuels--Gebert, Schuster, Woudenberg, O'Brien USDA Forest Service Gen. Tech. Rep. PSW-GTR-189. 2008 39  

E-print Network

Session B--Estimating Forest Fuels--Gebert, Schuster, Woudenberg, O'Brien USDA Forest Service Gen by statute or administrative designation) administered by the USDA Forest Service. We found that FIA data, a major focus of the National Fire Plan (USDA Forest Service and U.S. Department of Interior 2000

Standiford, Richard B.

378

USDA Forest Service Gen. Tech. Rep. PSW-GTR-168-Web. 1998. 55 Evaluating the Impacts of Logging Activities on Erosion  

E-print Network

USDA Forest Service Gen. Tech. Rep. PSW-GTR-168-Web. 1998. 55 Evaluating the Impacts of Logging Activities on Erosion and Suspended Sediment Transport in the Caspar Creek Watersheds1 Jack Lewis2 Abstract logging in the South Fork is too great to be explained by differences in sampling methods and in water

Standiford, Richard B.

379

The GenK-catalyzed C-6? Methylation in the Biosynthesis of Gentamicin: Isolation and Characterization of a Cobalamin-dependent Radical SAM Enzyme  

PubMed Central

The existence of cobalamin (Cbl)-dependent enzymes that are members of the radical S-adenosyl-L-methionine (SAM) superfamily was previously predicted based on bioinformatic analysis. A number of these are Cbl-dependent methyltransferases but the details surrounding their reaction mechanisms have remained unclear. In this report we demonstrate the in vitro activity of GenK, a Cbl-dependent radical SAM enzyme that methylates an unactivated sp3 carbon during the biosynthesis of gentamicin, an aminoglycoside antibiotic. Experiments to investigate the stoichiometry of the GenK reaction revealed that one equivalent each of 5?-deoxyadenosine and S-adenosyl-homocysteine are produced for each methylation reaction catalyzed by GenK. Furthermore, isotope-labeling experiments demonstrate that the S-methyl group from SAM is transferred to Cbl and the aminoglycoside product during the course of the reaction. Based on these results, one mechanistic possibility for the GenK reaction can be ruled out and further questions regarding the mechanisms of Cbl-dependent radical SAM methyltransferases, in general, are discussed. PMID:23679096

Kim, Hak Joong; McCarty, Reid M.; Ogasawara, Yasushi; Liu, Yung-nan; Mansoorabadi, Steven O.; LeVieux, Jake; Liu, Hung-wen

2013-01-01

380

313USDA Forest Service Gen.Tech.Rep. PSW-GTR-166. 1998. Growth and productivity of forests are important indicators for understanding the general condition and  

E-print Network

313USDA Forest Service Gen.Tech.Rep. PSW-GTR-166. 1998. Abstract Growth and productivity of forests of forest productivity and its natural and anthropogenic changes. Analysis of the U.S. Forest Health to air pollution. As the health and structure of forest ecosystems worsens, biodiversity and productivity

Standiford, Richard B.

381

51USDA Forest Service Gen. Tech. Rep. PSW-GTR-158. 1995. that encompasses more than one million continuous acres in  

E-print Network

, the National Park Service currently operates with approved Fire Management Plans allowing for PNF in wilderness and the Park Service's Fire Management Plans are amended, the ability to manage PNF across administrative51USDA Forest Service Gen. Tech. Rep. PSW-GTR-158. 1995. that encompasses more than one million

Standiford, Richard B.

382

281USDA Forest Service Gen.Tech.Rep. PSW-GTR-166. 1998. Systematic assessment and observation (survey, inventory) of forests in Latvia has been underway since the  

E-print Network

281USDA Forest Service Gen.Tech.Rep. PSW-GTR-166. 1998. Abstract Systematic assessment and observation (survey, inventory) of forests in Latvia has been underway since the 1700's. Latvia's forests are in the boreal/temperate forest zone and cover 44 percent of the country. Forest growing conditions

Standiford, Richard B.

383

and solvent in ion permeation. J. Gen. Physiol. (in the press). 16. Aqvist, J. & Luzhkov, V. Ion permeation mechanism of the potassium channel. Nature 404, 881884  

E-print Network

and solvent in ion permeation. J. Gen. Physiol. (in the press). 16. A°qvist, J. & Luzhkov, V. Ion, 8191­8204 (2000). 19. Berne`che, S. & Roux, B. Energetics of ion conduction through the Kþ channel. Nature 414, 73­77 (2001). 20. Berne`che, S. & Roux, B. A microscopic view of ion conduction through

Kah, Linda

384

Poster Session--Stereo Photo Series for Quantifying Natural Fuels--Ottmar, Vihnanek, Wright USDA Forest Service Gen. Tech. Rep. PSW-GTR-189. 2008. 351  

E-print Network

Poster Session--Stereo Photo Series for Quantifying Natural Fuels--Ottmar, Vihnanek, Wright USDA Forest Service Gen. Tech. Rep. PSW-GTR-189. 2008. 351 Stereo Photo Series for Quantifying Natural Fuels in the Americas1 Roger D. Ottmar,2 Robert E. Vihnanek,2 and Clinton S. Wright2 Introduction Photo series

Standiford, Richard B.

385

September 24, 2007 16:8 Proceedings Trim Size: 9in x 6in PSB2008GenMiR3 COMPARING SEQUENCE AND EXPRESSION FOR  

E-print Network

for the predictions of each feature and the consistency of Gene Ontology Biological Process annotation of their targetRNA and mRNA expression data and Gene Ontology enrichment but this feature adds little to the total accuracy:8 Proceedings Trim Size: 9in x 6in PSB2008GenMiR3 effects across multiple tissues must be considered. We have

Frey, Brendan J.

386

Wunderpus photogenicus n. gen. and sp., a new octopus from the shallow waters of the Indo-Malayan Archipelago (Cephalopoda: Octopodidae)  

Microsoft Academic Search

Wunderpus photogenicus n. gen. and n. sp. is a spectacular long-armed species that occurs on soft sediment habitats in shallow waters (typically less than 20 m deep) in Indo-Malayan waters. It is characterized by small eyes on elongate stalks, a long, conical papilla over each eye and a dramatic and fixed color pattern of white bars and spots over a

F. G. HOCHBERG; MARK D. NORMAN; JULIAN FINN

387

209 J. Gen. Physiol. The Rockefeller University Press 0022-1295/2000/02/209/13 $5.00 Volume 115 February 2000 209221  

E-print Network

,* R. Latorre,§ E. Rosenman,§ and F. Bezanilla* From the *Department of Physiology and Department with a pH-titratable external protein-lined vestibule (Cha, A., and F. Bezanilla. 1998. J. Gen. Phys- iol charge (Mannuzzu et al., 1996; Cha and Bezanilla, 1997), providing a time- resolved measurement

Bezanilla, Francisco

388

235 J. Gen. Physiol. The Rockefeller University Press 0022-1295/2002/03/235/15 $5.00 Volume 119 March 2002 235249  

E-print Network

.A., and F. Bezanilla. 1991. Biophys. J. 60:1499­1510) coupled to voltage-independent inactivation by an equilibrium constant (Bezanilla, F., and C.M. Armstrong. 1977. J. Gen. Physiol. 70:549­566) Keq 770, 1970; Bezanilla and Armstrong, 1977). Others demonstrated "slow" inactivation of the Na channel (Rudy

Gadsby, David

389

Omemeea maxbassiensis n. gen., n. sp. (Nematoda: Aphelenchoididae) from Galleries of the Bark Beetle Lepersinus californicus Sw. (Coleoptera: Scolytidae) in North Dakota.  

PubMed

Omemeea maxbassiensis n. gen., n. sp. was found inhabiting galleries of a bark beetle, Lepersinus californicus Sw., in green ash, Fraxinus pennsylvanica Marsh. The genus differs from all other genera in the subfamily in its uniquely shaped umbrella-like head, distinctive stylet, and location of excretory pore. PMID:19322384

Massey, C L

1971-07-01

390

Omemeea maxbassiensis n. gen., n. sp. (Nematoda: Aphelenchoididae) from Galleries of the Bark Beetle Lepersinus californicus Sw. (Coleoptera: Scolytidae) in North Dakota  

PubMed Central

Omemeea maxbassiensis n. gen., n. sp. was found inhabiting galleries of a bark beetle, Lepersinus californicus Sw., in green ash, Fraxinus pennsylvanica Marsh. The genus differs from all other genera in the subfamily in its uniquely shaped umbrella-like head, distinctive stylet, and location of excretory pore. PMID:19322384

Massey, C. L.

1971-01-01

391

Film and Language Learning in Victorian Schools: A Study of the 2009 Next Gen Program of the "Melbourne International Film Festival"  

ERIC Educational Resources Information Center

This article investigates the role of film in language education based on a study of the 2009 "Melbourne International Film Festival" (MIFF). It is structured around a literature review and results from surveys of students and teachers who participated in the young people's section of the program, Next Gen. The article argues that film can provide…

Lo Bianco, Hana

2010-01-01

392

CSU, FULLERTON CREDIT FOR EXTERNAL EXAMS (AP, IB, CLEP) ADVANCED PLACEMENT EXAMS (AP) SCORE UNITS COURSE CREDIT GEN EDUC BEGIN DATE END DATE  

E-print Network

CSU, FULLERTON CREDIT FOR EXTERNAL EXAMS (AP, IB, CLEP) ADVANCED PLACEMENT EXAMS (AP) SCORE UNITS ENGL 101 GE I.B 3 ENGL 105 GE III.B.2 Updated 11/30/10 #12;CSU, FULLERTON CREDIT FOR EXTERNAL EXAMS (AP, IB, CLEP) ADVANCED PLACEMENT EXAMS (AP) SCORE UNITS COURSE CREDIT GEN EDUC BEGIN DATE END DATE AP

de Lijser, Peter

393

DRACOREX HOGWARTSIA, N. GEN., N. SP., A SPIKED, FLAT-HEADED PACHYCEPHALOSAURID DINOSAUR FROM THE UPPER CRETACEOUS HELL CREEK FORMATION OF SOUTH DAKOTA  

Microsoft Academic Search

The pachycephalosaurid Dracorex hogwartsia, n. gen., n., sp., is a new pachycephalosaurin based on a nearly complete, and excellently preserved, young-adult skull from the Upper Cretaceous Hell Creek Formation (Lancian) of South Dakota. D. hogwartsia shows an unexpected mix of truly very primitive and very advanced features: no dome; wide open supratemporal fenestrae; large, spiked nodes on the squamosals; nodes

ROBERT T. BAKKER; ROBERT M. SULLIVAN; VICTOR PORTER; PETER LARSON; STEVEN J. SAULSBURY

394

Session A--Homeowners View of Thinning--McCaffrey USDA Forest Service Gen. Tech. Rep. PSW-GTR-189. 2008 15  

E-print Network

Session A--Homeowners View of Thinning--McCaffrey USDA Forest Service Gen. Tech. Rep. PSW-GTR-189. 2008 15 The Homeowner View of Thinning Methods for Fire Hazard Reduction: More Positive Than Many Think, and it is likely that thinning will be the dominant method for fuel load reduction. Yet little research has been

Standiford, Richard B.

395

Youngimonas vesicularis gen. nov., sp. nov., of the family Rhodobacteraceae, isolated from surface seawater, reclassification of Donghicola xiamenensis Tan et al. 2009 as Pseudodonghicola xiamenensis gen. nov., comb. nov. and emended description of the genus Donghicola Yoon et al. 2007.  

PubMed

A Gram-staining-negative, non-pigmented, strictly aerobic, rod-shaped, non-spore-forming, non-motile bacterium, devoid of bacteriochlorophyll, designated strain CC-AMW-E(T), was isolated from surface seawater off the coast at Kending, Taiwan. Strain CC-AMW-E(T) shared 95.7 and 93.9% 16S rRNA gene sequence similarity, respectively, with the type strains of the type species of the genera Donghicola (Donghicola eburneus SW-277(T)) and Roseovarius (Roseovarius tolerans EL-172(T)). The predominant (>75% of the total) fatty acid was summed feature 8 (C(18?:?1)?6c and/or C(18?:?1)?7c). The polar lipid profile included major amounts of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylcholine, phosphatidylethanolamine and an unidentified aminolipid. In addition, moderate amounts of an unidentified lipid and trace amounts of an unidentified phospholipid were detected. The DNA G+C content was 67.9 mol%. Ubiquinone Q-10 was the sole respiratory quinone. Based on its phylogenetic distinctiveness and distinguishing phenotypic characteristics (in particular its polar lipid pattern), we conclude that strain CC-AMW-E(T) represents a novel genus and species of the family Rhodobacteraceae, for which the name Youngimonas vesicularis gen. nov., sp. nov. is proposed. The type strain of Youngimonas vesicularis is CC-AMW-E(T) (?=?JCM 18819(T)?=?BCRC 80549(T)). In addition, an emended description of the genus Donghicola Yoon et al. 2007 and the reclassification of Donghicola xiamenensis Tan et al. 2009 as Pseudodonghicola xiamenensis gen. nov., comb. nov. (type strain Y-2(T)?=?MCCC 1A00107(T)?=?LMG 24574(T)?=?CGMCC 1.7081(T)) are proposed. PMID:24844264

Hameed, Asif; Shahina, Mariyam; Lin, Shih-Yao; Nakayan, Phanit; Liu, You-Cheng; Lai, Wei-An; Hsu, Yi-Han

2014-08-01

396

Vulgatibacter incomptus gen. nov., sp. nov. and Labilithrix luteola gen. nov., sp. nov., two myxobacteria isolated from soil in Yakushima Island, and the description of Vulgatibacteraceae fam. nov., Labilitrichaceae fam. nov. and Anaeromyxobacteraceae fam. nov.  

PubMed

Two myxobacterial strains (designated B00001(T) and B00002(T)) were isolated from forest soil samples collected from Yakushima Island, Kagoshima, Japan. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strains B00001(T) and B00002(T) respectively formed independent branches within the suborders Cystobacterineae and Sorangiineae and were most closely related to Cystobacter armeniaca DSM 14710(T) (90.4% similarity) and Byssovorax cruenta DSM 14553(T) (91.3%). Neither strain showed typical features of myxobacteria such as bacteriolytic action or fruiting body formation, but both had high DNA G+C contents (66.3-68.3 mol%). Swarming motility was observed in strain B00002(T) only. Cells of both strains were vegetative, chemoheterotrophic, mesophilic, strictly aerobic, Gram-negative, motile rods, and both strains exhibited esterase lipase (C8), leucine arylamidase, naphthol-AS-BI-phosphohydrolase and ?-galactosidase activities. Strain B00001(T) contained MK-7 as the predominant respiratory quinone and the major fatty acid was iso-C15:0. In contrast, strain B00002(T) contained MK-8 as the major cellular quinone and the major fatty acids were C16?:?1?5c and iso-C17?:?0. Based on the phenotypic and genotypic data presented, strains B00001(T) and B00002(T) represent novel genera and species, for which we propose the names Vulgatibacter incomptus gen. nov., sp. nov. and Labilithrix luteola gen. nov., sp. nov., respectively. The type strains of Vulgatibacter incomptus and Labilithrix luteola are B00001(T) (?=?NBRC 109945(T) = DSM 27710(T)) and B00002(T) ( = NBRC 109946(T) = DSM 27648(T)), respectively. The new genera are assigned to the new families Vulgatibacteraceae fam. nov. and Labilitrichaceae fam. nov., respectively. In addition, Anaeromyxobacteraceae fam. nov., is proposed to accommodate the genus Anaeromyxobacter, which is related to the genus Vulgatibacter. PMID:25048208

Yamamoto, Eisaku; Muramatsu, Hideyuki; Nagai, Koji

2014-10-01

397

Investigation of taxa of the family Pasteurellaceae isolated from Syrian and European hamsters and proposal of Mesocricetibacter intestinalis gen. nov., sp. nov. and Cricetibacter osteomyelitidis gen. nov., sp. nov.  

PubMed

Eleven strains from hamster of Bisgaard taxa 23 and 24, also referred to as Krause's groups 2 and 1, respectively, were investigated by a polyphasic approach including data published previously. Strains showed small, regular and circular colonies with smooth and shiny appearance, typical of members of the family Pasteurellaceae. The strains formed two monophyletic groups based on 16S rRNA gene sequence comparison to other members of the family Pasteurellaceae. Partial rpoB sequencing as well as published data on DNA-DNA hybridization showed high genotypic relationships within both groups. Menaquinone 7 (MK7) was found in strains of both groups as well as an unknown ubiquinone with shorter chain length than previously reported for any other member of the family Pasteurellaceae. A new genus with one species, Mesocricetibacter intestinalis gen. nov., sp. nov., is proposed to accommodate members of taxon 24 of Bisgaard whereas members of taxon 23 of Bisgaard are proposed to represent Cricetibacter osteomyelitidis gen. nov., sp. nov. Major fatty acids of type strains of type species of both genera are C(14:0), C(14:0) 3-OH/iso-C(16:1) I, C(16:1)?7c and C(16:0). The two genera are clearly separated by phenotype from each other and from existing genera of the family Pasteurellaceae. The type strain of Mesocricetibacter intestinalis is HIM 933/7(T) (?=Kunstyr 246/85(T)?=CCUG 28030(T)?=DSM 28403(T)) while the type strain of Cricetibacter osteomyelitidis is HIM943/7(T) (?=Kunstyr 507/85(T)?=CCUG 36451(T)?=DSM 28404(T)). PMID:25082850

Christensen, H; Nicklas, W; Bisgaard, M

2014-11-01

398

Use of swabs without transport media for the Gen-Probe Group A Strep Direct Test.  

PubMed

For several years we used rayon or Dacron swabs with liquid transport media for collection and transport of throat swab specimens for testing with the Gen-Probe Group A Strep Direct Test (GASDT). A report of favorable results with a Dacron swab without any transport media for GASDT by another laboratory prompted us to compare detection of group A streptococci (GAS) with and without transport media (referred to as "wet" and "dry" swabs, respectively). Phase one of this study used swabs seeded with GAS. Initially, six recent clinical isolates of GAS were inoculated onto wet and dry swabs and stored at room temperature (RT). After 1, 2, and 3 days of storage, colony counting and GASDT were performed with the swabs. The results, expressed as the mean percentage of the results at zero time, were as follows: for GASDT with wet swabs at 1, 2, and 3 days, 62, 51, and 56%, respectively; for GASDT with dry swabs at 1, 2, and 3 days, 105, 80, and 85%, respectively; for colony counts with wet swabs at 1, 2, and 3 days, 52, 26, and 13%, respectively; for colony counts with dry swabs at 1, 2, and 3 days, 10, 0, and 0%, respectively. An additional six strains of GAS were tested in a similar manner, except that extracts of pharyngeal flora (PF) were added to the inocula. The results obtained with extracts of PF were comparable to those obtained with GAS alone. We also compared the performance of GASDT with wet and dry swabs stored at RT and 4 degrees C. Ten strains of GAS were inoculated onto wet and dry swabs, and GASDT was performed each day for 9 days. The GASDT results for swabs on day 9, expressed as the mean percentage of the results obtained at zero time, were as follows: dry swab and 4 degrees C, 59%; wet swab and 4 degrees C, 31%; dry swab and RT, 33%; and wet swab and RT, 19%. In phase two of this study we conducted a clinical evaluation to determine whether the differences observed with seeded specimens would also be evident with patient specimens. We used a single dry Dacron swab paired with a single rayon Bacti-Swab with liquid Stuart transport medium for the clinical evaluation. Specimens were collected from 1,005 outpatients, plated onto a Strep Selective Agar plate, and then tested within 30 min by GASDT. If culture of GAS from the same swab is used to define a true-positive test result, the sensitivities and specificities were as follows: GASDT with wet swabs, 86.2 and 98.5%, respectively; GASDT with dry swabs, 90.7 and 98.1%, respectively. However, the use of culture as the "gold standard" may understate the actual performance characteristics of GASDT, particularly for the dry swabs. In conclusion, for GASDT the use of swabs without transport media may be preferable to the use of swabs with transport media. PMID:15243083

Bourbeau, Paul P; Heiter, Barbara J

2004-07-01

399

A new genus of Strepsiptera, Rozenia gen. n. (Stylopidae), a parasite of bee genera Acamptopoeum and Calliopsis (Andrenidae, Panurginae, Calliopsini)  

PubMed Central

Abstract A new Strepsiptera genus from South America is described, Rozenia gen. n., with three new species: Rozenia calliopsidis sp. n. (type species), Rozenia peruana sp. n. and Rozenia platicephala sp. n. These three new species are parasites of bees belonging to the tribe Calliopsini (Andrenidae, Panurginae). Rozenia calliopsidis sp. n. is a parasite of the bee genus Calliopsis Smith, 1853 and Rozenia peruana sp. n. and Rozenia platicephala sp. n. are parasites of the bee genus Acamptopoeum Cockerell, 1905. Diagnoses and descriptions of female puparia are presented for all three species. Diagnoses and descriptions of first instars (triungulinids) are presented for Rozenia calliopsidis sp. n. and Rozenia platicephala sp. n. The first case of increased number of setae on the body of the first instars and augmentation of chaetotaxy of Strepsiptera are discussed. PMID:25349488

Straka, Jakub; J?zová, Katerina; Batelka, Jan

2014-01-01

400

GenIDLEST A Parallel High Performance Computational Infrastructure for Simulating Complex Turbulent Flow and Heat Transfer  

NASA Astrophysics Data System (ADS)

GenIDLEST is a computer program developed for the simulation of transitional and turbulent flows in complex geometries. It solves the Navier-Stokes and energy equations on a body-fitted multi-block mesh. Both shared memory (OpenMP) and distributed memory (MPI) parallelism is implemented which results in a high degree of portability between computer architectures. The code infrastructure includes different approximations for the non-linear terms, subgrid stress models, flux limiters, range of boundary conditions, placement of arbitrary internal blockages in the computational domain, cache aware preconditioned Krylov methods for solution of linear systems, data handling tools, tools for extracting statistical quantities, vortex identification techniques, and a Java front-end. We will report on these and other features and capabilities, applications, and ongoing work.

Tafti, Danesh

2002-11-01

401

Leptohelia flexibilis gen. nov. et sp. nov., a remarkable deep-sea stylasterid (Cnidaria: Hydrozoa: Stylasteridae) from the southwest Pacific.  

PubMed

Leptohelia flexibilis gen. nov. et sp. nov., the first stylasterid with a combined calcified and non-calcified skeleton, is described from seamounts and the slope off the islands of New Caledonia, in the southwestern Pacific. The new species is distinguished from all other species of the family Stylasteridae by having a non-calcified organic axis, internal to the basal portion of the calcified corallum. The internal axis is flexible and enclosed by a series of up to 10 calcified annuli, allowing passive lateral bending of the colony. Molecular phylogenetic analyses confirm that Leptohelia flexibilis is a stylasterid coral and reveal that the species is closely related to Leptohelia microstylus comb. nov., a southwestern Pacific stylasterid that lacks an internal axis. PMID:25543758

Lindner, Alberto; Cairns, Stephen D; Zibrowius, Helmut

2014-01-01

402

Third-Party Evaluation of Petro Tex Hydrocarbons, LLC, ReGen Lubricating Oil Re-refining Process  

SciTech Connect

This report presents an assessment of market, energy impact, and utility of the PetroTex Hydrocarbons, LLC., ReGen process for re-refining used lubricating oil to produce Group I, II, and III base oils, diesel fuel, and asphalt. PetroTex Hydrocarbons, LLC., has performed extensive pilot scale evaluations, computer simulations, and market studies of this process and is presently evaluating construction of a 23 million gallon per year industrial-scale plant. PetroTex has obtained a 30 acre site in the Texas Industries RailPark in Midlothian Texas. The environmental and civil engineering assessments of the site are completed, and the company has been granted a special use permit from the City of Midlothian and air emissions permits for the Texas Commission on Environmental Quality.

Compere, A L [ORNL; Griffith, William {Bill} L [ORNL

2009-04-01

403

Balneomonas flocculans gen. nov., sp. nov., a new cellulose-producing member of the alpha-2 subclass of Proteobacteria.  

PubMed

A new bacterial strain capable of producing cellulose was isolated from a hot spring. The isolate was Gram-negative, aerobic, and rod-shaped. The optimum temperature for growth was 40-45 degrees C. Methanol, glucose and other common carbohydrates were not utilized as sole growth substrates. Thiosulfate was not oxidized. The G+C content of the DNA was determined to be 64.0 mol%. Comparative 16S rDNA analysis indicated that Bosea thiooxidans and some strains of the genus Methylobacterium were the nearest relatives. The isolate can be distinguished from these relatives by its defectiveness in methanol utilization and thiosulfate oxidation. On the basis of its phenotypic properties and phylogeny, it is proposed that the isolate be designated Balneomonas flocculans gen. nov., sp. nov. The type strain is TFBT (= JCM 11936T, = KCTC 12101T, = IAM 15034T, = ATCC BAA-817T). PMID:15046301

Takeda, Minoru; Suzuki, Ichiro; Koizumi, Jun-Ichi

2004-03-01

404

Tardiphaga robiniae gen. nov., sp. nov., a new genus in the family Bradyrhizobiaceae isolated from Robinia pseudoacacia in Flanders (Belgium).  

PubMed

Gram-negative, rod-shaped bacteria were isolated from Robinia pseudoacacia root nodules. On the basis of the 16S rRNA gene phylogeny, they are closely related to Bradyrhizobium, Rhodopseudomonas and Nitrobacter species (97% sequence similarity), belonging to the class Alphaproteobacteria and family Bradyrhizobiaceae. The results of physiological and biochemical tests together with sequence analysis of housekeeping genes (atpD, dnaK, gyrB, recA and rpoB) allowed differentiation of this group from other validly published Bradyrhizobiaceae genera. NodA, nodC and nifH genes could not be amplified. On the basis of genotypic and phenotypic data, these organisms represent a novel genus and species for which the name Tardiphaga robiniae gen. nov., sp. nov. (LMG 26467(T)=CCUG 61473(T)), is proposed. PMID:22444281

De Meyer, Sofie E; Coorevits, An; Willems, Anne

2012-06-01

405

Haootia quadriformis n. gen., n. sp., interpreted as a muscular cnidarian impression from the Late Ediacaran period (approx. 560 Ma)  

PubMed Central

Muscle tissue is a fundamentally eumetazoan attribute. The oldest evidence for fossilized muscular tissue before the Early Cambrian has hitherto remained moot, being reliant upon indirect evidence in the form of Late Ediacaran ichnofossils. We here report a candidate muscle-bearing organism, Haootia quadriformis n. gen., n. sp., from approximately 560 Ma strata in Newfoundland, Canada. This taxon exhibits sediment moulds of twisted, superimposed fibrous bundles arranged quadrilaterally, extending into four prominent bifurcating corner branches. Haootia is distinct from all previously published contemporaneous Ediacaran macrofossils in its symmetrically fibrous, rather than frondose, architecture. Its bundled fibres, morphology, and taphonomy compare well with the muscle fibres of fossil and extant Cnidaria, particularly the benthic Staurozoa. Haootia quadriformis thus potentially provides the earliest body fossil evidence for both metazoan musculature, and for Eumetazoa, in the geological record. PMID:25165764

Liu, Alexander G.; Matthews, Jack J.; Menon, Latha R.; McIlroy, Duncan; Brasier, Martin D.

2014-01-01

406

Taxonomic studies on a new marine ciliate, Apocoleps magnus gen. nov., spec. nov. (Ciliophora, Colepidae), isolated from Qingdao, China  

NASA Astrophysics Data System (ADS)

The morphology and infraciliature of a new marine colepid ciliate, Apocoleps magnus gen. nov., spec. nov., are described based on living observations and silver impregnations. The new genus Apocoleps is characterized by having 8 (vs. 6 in most other related genera) armour tiers, spines at both ends of the cell, 3 adoral organelles and plates with 4 reniform uni-windows. Apocoleps magnus spec. nov. is defined by the following features: body elongated and slightly curved, about 100-120µm× 35-45 µm in vivo; anterior tertiary tier plate with four uni-windows, most secondary and main tier plates with four uni-windows, posterior tertiary tier plate with two uni-windows; left plate margin slightly serrated; on average 23 transverse and 22 longitudinal ciliary rows; one terminal contractile vacuole; marine habitat.

Chen, Xiangrui; Warren, Alan; Song, Weibo

2009-12-01

407

Tapironema coronatum n. gen., n. sp. (Trichostrongyloidea-Cooperiidae-Obeliscoidinae), a parasite of Holochilus brasiliensis and Tapirus terrestris.  

PubMed

In this paper we provide a description of Tapironema coronatum n. gen. n. sp. (Trichostrongyloidea, Obeliscoidinae) from the cricetid Holochilus brasiliensis or "water rat" in Argentina (Type material) and from Tapirus terrestris in French Guyana (voucher material in poor condition). The new genus is characterized by a corona radiata, an oesophageal tooth, a bilaterally synlophe with about 73 (male), 122 (female) cuticular ridges, a caudal bursa pattern 2-1-2 with rays 5 and 6 parallel and close together and rays 5 longer than rays 3. The most closely related genus is the monospecific Teporingonema Harris, 1985, from a Mexican lagomorph, Romerolagus. The cephalic extremity of this parasite is redescribed after the type-material. The systematic position of Teporingonema amongst the Obeliscoidinae is defined and the hypotheses concerning the origin of this sub family are provided. PMID:9587607

Durette-Desset, M C; Chabaud, A G; Sutton, C A

1997-09-01

408

Evaluating the Suitability for CO2 Storage at the FutureGen 2.0 Site, Morgan County, Illinois, USA  

SciTech Connect

FutureGen 2.0 site will be the first near-zero emission power plant with fully integrated long-term storage in a deep, non-potable saline aquifer in the United States. The proposed FutureGen 2.0 CO2 storage site is located in northeast Morgan County, Illinois, U.S.A., forty-eight kilometres from the Meredosia Energy Center where a large-scale oxy-combustion demonstration will be conducted. The demonstration will involve > 90% carbon capture, which will produce more than one million metric tons (MMT) of CO2 per year. The CO2 will be compressed at the power plant and transported via pipeline to the storage site. To examine CO2 storage potential of the site, a 1,467m characterization well (FGA#1) was completed in December 2011. The target reservoir for CO2 storage is the Mt. Simon Sandstone and Elmhurst Sandstone Member of the lower Eau Claire Formation for a combined thickness of 176 m. Confining beds of the overlying Lombard and Proviso Members (upper Eau Claire Formation) reach a thickness of 126 m. Characterization of the target injection zone and the overlying confining zone was based on wellbore data, cores, and geophysical logs, along with surface geophysical (2-D seismic profiles, magnetic and gravity), and structural data collected during the initial stage of the project . Based on this geological model, 3D simulations of CO2 injection and redistribution were conducted using STOMP-CO2, a multiphase flow and transport simulator. After this characterization stage, it appears that the injection site is a suitable geologic system for CO2 sequestration and that the injection zone is sufficient to receive up to 33 MMT of CO2 at a rate of 1.1 MMT/yr. GHGT-11 conference

Bonneville, Alain; Gilmore, Tyler J.; Sullivan, E. C.; Vermeul, Vincent R.; Kelley, Mark E.; White, Signe K.; Appriou, Delphine; Bjornstad, Bruce N.; Gerst, Jacqueline L.; Gupta, Neeraj; Horner, Jacob A.; McNeil, Caitlin; Moody, Mark A.; Rike, William M.; Spane, Frank A.; Thorne, Paul D.; Zeller, Evan R.; Zhang, Z. F.; Hoffman, Jeffrey; Humphreys, Kenneth K.

2013-08-05

409

GenLab: A MATLAB ®-based program for structural analysis of folds mapped by GPS or seismic methods  

NASA Astrophysics Data System (ADS)

GenLab is a MATLAB ® code for structural analysis of digitally and seismically mapped horizons based on the geometrical model of the developable surface. This model is chosen because surfaces of this type result from the bending of a non-stretching stratum and because deviation from developable geometry implies that bed stretching during folding has occurred. The model is therefore linked with straining of the horizon and can be used for highlighting regions of deformation expressed by brittle fracturing or ductile deformation. Mathematically, a developable surface is one upon which straight lines (generators) can be drawn, and along these generators the orientations of tangent planes of the surface remain constant. Our method involves treating real geological surfaces as approximations to developable surfaces and determines the generator lines at different points on the surface. At these points we consider strip samples of the surface radiating in different directions and examine the variability of strike and dip within each sample strip. The radial scan-line length parameter is user-defined, and the optimal value can be easily identified by geostatistical analysis of the depth data. The local plunge lines (the approximation to the generatrix of a developable fold) are therefore identified as the direction associated with the least variation of surface attitude, i.e., the most constant strike and dip. The map pattern obtained by analyzing the plunges and trends of plunge lines across an area allows identification of domains where folding accords closely with a developable geometry. Such domains are recognized from straight plunge lines, defining parallel or convergent patterns. According to the model, deviations from these patterns correspond to regions of structural complexity associated with ductile or brittle straining of the surface being analyzed. The plunge-line analysis therefore offers a useful technique with potential for predicting strained zones and automatic fault recognition. GenLab allows the rapid implementation of this analysis and uses the matrix capabilities and contouring functions of MATLAB.

Fernández-Martínez, J. L.; Lisle, Richard J.

2009-02-01

410

Enhanced/Synthetic Vision and Head-Worn Display Technologies for Terminal Maneuvering Area NextGen Operations  

NASA Technical Reports Server (NTRS)

NASA is researching innovative technologies for the Next Generation Air Transportation System (NextGen) to provide a "Better-Than-Visual" (BTV) capability as adjunct to "Equivalent Visual Operations" (EVO); that is, airport throughputs equivalent to that normally achieved during Visual Flight Rules (VFR) operations rates with equivalent and better safety in all weather and visibility conditions including Instrument Meteorological Conditions (IMC). These new technologies build on proven flight deck systems and leverage synthetic and enhanced vision systems. Two piloted simulation studies were conducted to access the use of a Head-Worn Display (HWD) with head tracking for synthetic and enhanced vision systems concepts. The first experiment evaluated the use a HWD for equivalent visual operations to San Francisco International Airport (airport identifier: KSFO) compared to a visual concept and a head-down display concept. A second experiment evaluated symbology variations under different visibility conditions using a HWD during taxi operations at Chicago O'Hare airport (airport identifier: KORD). Two experiments were conducted, one in a simulated San Francisco airport (KSFO) approach operation and the other, in simulated Chicago O'Hare surface operations, evaluating enhanced/synthetic vision and head-worn display technologies for NextGen operations. While flying a closely-spaced parallel approach to KSFO, pilots rated the HWD, under low-visibility conditions, equivalent to the out-the-window condition, under unlimited visibility, in terms of situational awareness (SA) and mental workload compared to a head-down enhanced vision system. There were no differences between the 3 display concepts in terms of traffic spacing and distance and the pilot decision-making to land or go-around. For the KORD experiment, the visibility condition was not a factor in pilot's rating of clutter effects from symbology. Several concepts for enhanced implementations of an unlimited field-of-regard BTV concept for low-visibility surface operations were determined to be equivalent in pilot ratings of efficacy and usability.

Arthur, Jarvis J., III; Prinzell, Lawrence J.; Williams, Steven P.; Bailey, Randall E.; Shelton, Kevin J.; Norman, R. Mike

2011-01-01

411

Enhanced/synthetic vision and head-worn display technologies for terminal maneuvering area NextGen operations  

NASA Astrophysics Data System (ADS)

NASA is researching innovative technologies for the Next Generation Air Transportation System (NextGen) to provide a "Better-Than-Visual" (BTV) capability as adjunct to "Equivalent Visual Operations" (EVO); that is, airport throughputs equivalent to that normally achieved during Visual Flight Rules (VFR) operations rates with equivalent and better safety in all weather and visibility conditions including Instrument Meteorological Conditions (IMC). These new technologies build on proven flight deck systems and leverage synthetic and enhanced vision systems. Two piloted simulation studies were conducted to access the use of a Head-Worn Display (HWD) with head tracking for synthetic and enhanced vision systems concepts. The first experiment evaluated the use a HWD for equivalent visual operations to San Francisco International Airport (airport identifier: KSFO) compared to a visual concept and a head-down display concept. A second experiment evaluated symbology variations under different visibility conditions using a HWD during taxi operations at Chicago O'Hare airport (airport identifier: KORD). Two experiments were conducted, one in a simulated San Francisco airport (KSFO) approach operation and the other, in simulated Chicago O'Hare surface operations, evaluating enhanced/synthetic vision and head-worn display technologies for NextGen operations. While flying a closely-spaced parallel approach to KSFO, pilots rated the HWD, under low-visibility conditions, equivalent to the out-the-window condition, under unlimited visibility, in terms of situational awareness (SA) and mental workload compared to a head-down enhanced vision system. There were no differences between the 3 display concepts in terms of traffic spacing and distance and the pilot decision-making to land or go-around. For the KORD experiment, the visibility condition was not a factor in pilot's rating of clutter effects from symbology. Several concepts for enhanced implementations of an unlimited field-of-regard BTV concept for low-visibility surface operations were determined to be equivalent in pilot ratings of efficacy and usability.

Arthur, Jarvis J., III; Prinzel, Lawrence J., III; Williams, Steven P.; Bailey, Randall E.; Shelton, Kevin J.; Norman, R. Mike

2011-06-01

412

Non contiguous-finished genome sequence and description of Dielma fastidiosa gen. nov., sp. nov., a new member of the Family Erysipelotrichaceae  

PubMed Central

Dielma fastidiosa strain JC13T gen. nov., sp. nov. is the type strain of D. fastidiosa gen. nov., sp. nov., the type species of a new genus within the family Erysipelotrichaceae. This strain, whose draft genome is described here, was isolated from the fecal flora of a healthy 16-year-old male Senegalese volunteer. D. fastidiosa is a Gram-negative anaerobic rod. Here we describe the features of this organism, together with the complete genome sequence and annotation. The 3,574,031 bp long genome comprises a 3,556,241-bp chromosome and a 17,790-bp plasmid. The chromosome contains 3,441 protein-coding and 50 RNA genes, including 3 rRNA genes, whereas the plasmid contains 17 protein-coding genes. PMID:23991263

Ramasamy, Dhamodharan; Lagier, Jean-Christophe; Nguyen, Thi Tien; Raoult, Didier; Fournier, Pierre-Edouard

2013-01-01

413

Boltimys broomi gen. nov., sp. nov. (Rodentia, Mammalia), nouveau Muridae d'affinité incertaine du Pliocène inférieur d'Afrique du Sud  

NASA Astrophysics Data System (ADS)

Boltimys broomi gen. nov., sp. nov., a Muridae of uncertain affinity in the Early Pliocene of South Africa. Boltimys broomi gen. nov., sp. nov. is reported from the Early Pliocene fauna of Waypoint 160, a fossiliferous locality in the area of Bolt's Farm (Province of Gauteng) near Krugersdorp in South Africa. The occlusal surface of the jugal teeth is characterized by a basin-shaped aspect due to the coalescence of the cusps which make the lobes of the molars. An accessory inner cusp is present on the first and second upper molars. A faint longitudinal crest is present only in the first lower molar. The new rodent is tentatively referred to the subfamily Myocricetodontinae.

Sénégas, Frank; Michaux, Jacques

2000-04-01

414

Fixation of the NexGen HA-TCP-coated cementless, screwless total knee arthroplasty: comparison with conventional cementless total knee arthroplasty of the same type.  

PubMed

We performed a 12-month prospective study on 59 patients (92 knees) who underwent NexGen (Zimmer Inc, Warsaw, IN) cruciate-retaining total knee arthroplasty. In the control group, uncoated components were fixed using screws, whereas the hydroxyapatite-tricalcium phosphate (HA-TCP) group underwent screwless fixation of coated components. At 12 months postoperatively, there was a radiographic clear zone around the femoral and tibial components of 56.5% and 32.6% of the knees in the control group. The HA-TCP group showed a clear zone at the medial aspect of the tibial component in only 1 knee. These results suggested that HA-TCP-coated articular components show good initial fixation without using screws. The NexGen coated knee arthroplasty may be useful for solving the problems of cementless fixation. PMID:12066275

Gejo, Ryuichi; Akizuki, Shaw; Takizawa, Tsutomu

2002-06-01

415

False-Positive Gen-Probe Direct Mycobacterium tuberculosis Amplification Test Results for Patients with Pulmonary M. kansasii and M. avium Infections  

Microsoft Academic Search

The Gen-Probe Amplified Mycobacterium Tuberculosis Direct (MTD) test has been approved for use in the United States for the rapid diagnosis of pulmonary tuberculosis in patients with acid-fast smear-positive sputum samples since 1996. Four patients infected with human immunodeficiency virus and one chronic pulmonary-disease patient seen in our institutions with abnormal chest radiographs and fluorochrome stain- positive sputa were evaluated

JAMES H. JORGENSEN; JESSE R. SALINAS; ROSEMARY PAXSON; KAREN MAGNON; JAN E. PATTERSON; THOMAS F. PATTERSON

1999-01-01

416

A review of "The Variorum Edition of the Poetry of John Donne: The Holy Sonnets." by Gary A. Stringer gen. ed.  

E-print Network

REVIEWS 1 Gary A. Stringer, gen. ed. The Variorum Edition of the Poetry of John Donne: The Holy Sonnets, Volume 7, Part 1. Bloomington: Indiana University Press, 2005. cvii + 606 pp. $59.95. Review by ALBERT C. LABRIOLA, DUQUESNE UNIVERSITY... by principles and criteria outlined by Gary A. Stringer in an Appendix, the editors provide arguments that are well-reasoned, clearly enunciated, and very effective in engaging and resolving textual challenges afforded by the Holy Sonnets. Emphasized...

Albert C. Labriola

2006-01-01

417

Intraspecific Variation in Small-Subunit rRNA Sequences in GenBank: Why Single Sequences May Not Adequately Represent Prokaryotic Taxa  

Microsoft Academic Search

Small-subunit rRNA (SSU rRNA) sequencing is a powerful tool to detect, identify, and classify prokaryotic organisms, and there is currently an explosion of SSU rRNA sequencing in the microbiology community. We report unexpectedly high levels of intraspecific variation (within and between strains) of prokaryote SSU rRNA sequences deposited in GenBank. A total of 82% of the prokaryote species with two

REBECCA A. CLAYTON; GRANGER SUTTON; PAUL S. HINKLE; CAROL BULT

418

Alcalilimnicola halodurans gen. nov., sp. nov., an alkaliphilic, moderately halophilic and extremely halotolerant bacterium, isolated from sediments of soda-depositing Lake Natron, East Africa Rift Valley  

Microsoft Academic Search

concentrations of 0-28% (w\\/v), with optimal growth at 3-8% (w\\/v) NaCl. The bacterium preferentially metabolized volatile fatty acids and required vitamins for growth. The name Alcalilimnicola halodurans gen. nov., sp. nov. is proposed for the novel isolate, placed in the c-Proteobacteria within the family Ectothiorhodospiraceae on the basis of analysis of the 16S rDNA sequence, polar lipids, fatty acids and

Michail M. Yakimov; Laura Giuliano; Tatiana N. Chernikova; Gabriella Gentile; Wolf-Rainer Abraham; Heinrich Lu; Kenneth N. Timmis; Peter N. Golyshin

419

A new African soft scale genus, Pseudocribrolecanium gen. nov. (Hemiptera: Coccoidea: Coccidae), erected for two species, including the citrus pest P. andersoni (Newstead) comb. nov  

PubMed Central

A new African genus of soft scale insects, Pseudocribrolecanium gen. nov. is erected to accommodate Akermes colae Green & Laing and Cribrolecanium andersoni (Newstead). The adult females and first-instar nymphs of the two species are redescribed and illustrated. Taxonomic keys to separate the adult females and first-instar nymphs are provided. The affinity of Pseudocribrolecanium with the tribe Paralecaniini in the subfamily Coccinae is discussed. PMID:19537997

Kondo, Takumasa

2006-01-01

420

On the Emsian (Early Devonian) arthropods of the Rhenish Slate Mountains: 4. The eurypterids Alkenopterus and Vinetopterus n. gen. (Arthropoda: Chelicerata)  

Microsoft Academic Search

Recently collected material of Early Devonian eurypterids (Chelicerata: Eurypterida) from the Rhenish Slate Mountains is described\\u000a and compared to the reexamined type material ofDrepanopterus struvei\\u000a Størmer, 1974 andAlkenopterus brevitelson\\u000a Størmer, 1974, both from the Emsian of Alken an der Mosel.Vinetopterus martini n. gen., n. sp., from Siegenian strata of the newly detected eurypterid localities Burglahr and Hombach in the Westerwald,

Markus Poschmann; O. Erik Tetlie

2004-01-01

421

Neotropical monogenea. 13. Rhinonastes pseuodocapsaloideum n. gen., n. sp. (Dactylogyridae, Ancyrocephalinae), a nasal parasite of curimatã, Prochilodus nigricans Agassiz (Cypriniformes, Prochilodontidae), in Brazil.  

PubMed

Rhinonastes pseudocapsaloideum n. sp. (Dactylogyridae, Ancyrocephalinae) is described from the nasal cavity of Prochilodus nigricans Agassiz (Cypriniformes, Prochilodontidae) in Brazil. Rhinonastes n. gen. is proposed for species possessing a dextroventral genital pore, a bilobed testis, a ventral C-shaped ovary lying between the 2 testicular lobes, and a disc-shaped haptor armed with a ventral anchor-bar complex and 14 hooks. PMID:3397831

Kritsky, D C; Thatcher, V E; Boeger, W A

1988-08-01

422

A new genus of oak gallwasp, Coffeikokkos Pujade-Villar & Melika, gen. n., with a description of a new species from Costa Rica (Hymenoptera, Cynipidae).  

PubMed

A new genus of oak gallwasp, Coffeikokkos Pujade-Villar & Melika, gen. n., is described from Costa Rica. Diagnostic characters and generic limits of the new genus are discussed in detail. The new genus includes Coffeikokkos copeyensis Pujade-Villar & Melika, sp. n., which induces galls on stems of Quercus bumelioides, an endemic oak to Costa Rica, Honduras and Panama. The new species and galls are described and illustrated. PMID:22423188

Pujade-Villar, Juli; Hanson, Paul; Melika, George

2012-01-01

423

A new genus of oak gallwasp, Coffeikokkos Pujade-Villar & Melika, gen. n., with a description of a new species from Costa Rica (Hymenoptera, Cynipidae)  

PubMed Central

Abstract A new genus of oak gallwasp, Coffeikokkos Pujade-Villar & Melika, gen. n., is described from Costa Rica. Diagnostic characters and generic limits of the new genus are discussed in detail. The new genus includes Coffeikokkos copeyensis Pujade-Villar & Melika, sp. n., which induces galls on stems of Quercus bumelioides, an endemic oak to Costa Rica, Honduras and Panama. The new species and galls are described and illustrated. PMID:22423188

Pujade-Villar, Juli; Hanson, Paul; Melika, George

2012-01-01

424

Description of Niveispirillum fermenti gen. nov., sp. nov., isolated from a fermentor in Taiwan, transfer of Azospirillum irakense (1989) as Niveispirillum irakense comb. nov., and reclassification of Azospirillum amazonense (1983) as Nitrospirillum amazonense gen. nov.  

PubMed

A taxonomic study was carried out on a novel aerobic bacterial strain (designated CC-LY736(T)) isolated from a fermentor in Taiwan. Cells of strain CC-LY736(T) were Gram-stain negative, spiral-shaped and motile by means of a monopolar flagellum. Strain CC-LY736(T) shared the greatest degree of 16S rRNA gene sequence similarity to Azospirillum irakense DSM 11586(T) (97.2 %), Rhodocista centenaria JCM 21060(T) (96.3 %) and Rhodocista pekingensis JCM 11669(T) (96.1 %). The major fatty acids were C16:0, C16:1 ?5c, C19:0 cyclo ?8c, C18:1 ?7c/C18:1 ?6c, C16:0 3-OH and C18:1 2-OH. The predominant polar lipids included phosphatidylcholine, phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylmethylethanolamine, phosphatidyldimethylethanolamine and two unidentified glycolipids. The common major respiratory quinone was ubiquinone Q-10 and predominant polyamines were sym-homospermidine and putrescine. The DNA G+C content of strain CC-LY736(T) was 67.6 ± 0.1 mol %. During phylogenetic analysis, strain CC-LY736(T) formed a unique phyletic lineage associated with Rhodocista species. However, the combination of genetic, chemotaxonomic and physiological data clearly indicated that strain CC-LY736(T) was a novel representative of the family Rhodospirillaceae. Based on the polyphasic comparison, the name Niveispirillum fermenti gen. nov., sp. nov. is proposed; the type strain of the type species is CC-LY736(T) (= BCRC 80504(T) = LMG 27263(T)). In addition, the reclassifications of Azospirillum irakense as Niveispirillum irakense comb. nov. (type strain KBC1(T) = ATCC 51182(T) = BCRC 15764(T) = CIP 103311(T)), and Azospirillum amazonense as Nitrospirillum amazonense gen. nov., sp. nov. (type strain Am14(T) = ATCC 35119(T) = BCRC 14279(T) = DSM 3787(T)) are proposed based on the polyphasic taxonomic data obtained in this study. PMID:24771126

Lin, Shih-Yao; Hameed, Asif; Shen, Fo-Ting; Liu, You-Cheng; Hsu, Yi-Han; Shahina, Mariyam; Lai, Wei-An; Young, Chiu-Chung

2014-06-01

425

A Network Pharmacology Approach to Determine Active Compounds and Action Mechanisms of Ge-Gen-Qin-Lian Decoction for Treatment of Type 2 Diabetes  

PubMed Central

Traditional Chinese medicine (TCM) herbal formulae can be valuable therapeutic strategies and drug discovery resources. However, the active ingredients and action mechanisms of most TCM formulae remain unclear. Therefore, the identification of potent ingredients and their actions is a major challenge in TCM research. In this study, we used a network pharmacology approach we previously developed to help determine the potential antidiabetic ingredients from the traditional Ge-Gen-Qin-Lian decoction (GGQLD) formula. We predicted the target profiles of all available GGQLD ingredients to infer the active ingredients by clustering the target profile of ingredients with FDA-approved antidiabetic drugs. We also applied network target analysis to evaluate the links between herbal ingredients and pharmacological actions to help explain the action mechanisms of GGQLD. According to the predicted results, we confirmed that a novel antidiabetic ingredient from Puerariae Lobatae radix (Ge-Gen), 4-Hydroxymephenytoin, increased the insulin secretion in RIN-5F cells and improved insulin resistance in 3T3-L1 adipocytes. The network pharmacology strategy used here provided a powerful means for identifying bioactive ingredients and mechanisms of action for TCM herbal formulae, including Ge-Gen-Qin-Lian decoction. PMID:24527048

Li, Huiying; Zhao, Linhua; Zhang, Bo; Jiang, Yuyu; Wang, Xu; Guo, Yun; Liu, Hongxing; Li, Shao; Tong, Xiaolin

2014-01-01

426

AtGEN1 and AtSEND1, Two Paralogs in Arabidopsis, Possess Holliday Junction Resolvase Activity1[W][OPEN  

PubMed Central

Holliday junctions (HJs) are physical links between homologous DNA molecules that arise as central intermediary structures during homologous recombination and repair in meiotic and somatic cells. It is necessary for these structures to be resolved to ensure correct chromosome segregation and other functions. In eukaryotes, including plants, homologs of a gene called XPG-like endonuclease1 (GEN1) have been identified that process HJs in a manner analogous to the HJ resolvases of phages, archaea, and bacteria. Here, we report that Arabidopsis (Arabidopsis thaliana), a eukaryotic organism, has two functional GEN1 homologs instead of one. Like all known eukaryotic resolvases, AtGEN1 and Arabidopsis single-strand DNA endonuclease1 both belong to class IV of the Rad2/XPG family of nucleases. Their resolvase activity shares the characteristics of the Escherichia coli radiation and UV sensitive C paradigm for resolvases, which involves resolving HJs by symmetrically oriented incisions in two opposing strands. This leads to ligatable products without the need for further processing. The observation that the sequence context influences the cleavage by the enzymes can be interpreted as a hint for the existence of sequence specificity. The two Arabidopsis paralogs differ in their preferred sequences. The precise cleavage positions observed for the resolution of mobile nicked HJs suggest that these cleavage positions are determined by both the substrate structure and the sequence context at the junction point. PMID:25037209

Bauknecht, Markus; Kobbe, Daniela

2014-01-01

427

The Columbus Knee System: 4-Year Results of a New Deep Flexion Design Compared to the NexGen Full Flex Implant  

PubMed Central

The Columbus knee system is designed as a standard knee implant to allow high flexion without additional bone resection. Between August, 2004 and March, 2010 we performed 109 total knee arthroplasties of the Columbus knee system in 101 consecutive patients suffering from primary arthrosis of the knee. Mean age was 72.4 years in women and 70.3 years in men. Mean followup was 47.3 months. The 4-year results of a group of patients who received the NexGen Full Flex implant operated by the same surgeon were used for comparison. Mean total knee score was Columbus: 175.6 and NexGen Flex: 183.4; P = 0.037. Mean operation time was 53?min for Columbus and 66?min for NexGen Flex; P < 0.001. With new streamlined instruments operative time became 60?min for the Columbus; P > 0.05. Radiological assessment showed no signs of loosening for both groups. Therefore, the Columbus knee system can be recommended for flexion angles up to 140°. PMID:22496976

Goebel, D.; Schultz, W.

2012-01-01

428

The Columbus Knee System: 4-Year Results of a New Deep Flexion Design Compared to the NexGen Full Flex Implant.  

PubMed

The Columbus knee system is designed as a standard knee implant to allow high flexion without additional bone resection. Between August, 2004 and March, 2010 we performed 109 total knee arthroplasties of the Columbus knee system in 101 consecutive patients suffering from primary arthrosis of the knee. Mean age was 72.4 years in women and 70.3 years in men. Mean followup was 47.3 months. The 4-year results of a group of patients who received the NexGen Full Flex implant operated by the same surgeon were used for comparison. Mean total knee score was Columbus: 175.6 and NexGen Flex: 183.4; P = 0.037. Mean operation time was 53?min for Columbus and 66?min for NexGen Flex; P < 0.001. With new streamlined instruments operative time became 60?min for the Columbus; P > 0.05. Radiological assessment showed no signs of loosening for both groups. Therefore, the Columbus knee system can be recommended for flexion angles up to 140°. PMID:22496976

Goebel, D; Schultz, W

2012-01-01

429

Results of Total Knee Arthroplasty with NexGen LPS-flex Implant Using Navigation System (Brain Lab): Results with a 5-year Follow-up  

PubMed Central

Purpose To evaluate the clinical and radiological results of patients that underwent total knee arthroplasty (TKA) with a NexGen LPS-Flex implant using a Navigation system (Brain Lab). Materials and Methods Between January 2001 and December 2005, 55 knees in 46 patients which used the NexGen LPS-Flex implant with a Navigation system (Brain Lab) for primary TKA were clinically and radiologically evaluated after a minimum follow-up of 5 years. Evaluation included preoperative and postoperative range of motion (ROM), Knee Society Score (KSS), tibio-femoral angle and postoperative complications. Results Knee ROM was increased from 118.9° preoperatively to 126.9° at the last follow up. In addition, the preoperative flexion contracture improved from 6.5° to 1.8° postoperatively. The mean KSS and functional score were improved from 59.8 and 51.2 to postoperative scores of 86.4 and 85.2 respectively. The rate of appearance of radiolucency in X-ray was 21.8%. One case of superficial skin infection and one case of aseptic loosening were noted as complications but, did not require a revision surgery. Conclusions TKA with NexGen LPS-Flex implant using Navigation system (Brain Lab) showed satisfactory improvement in pain and function, but more long term follow up will be needed to complete verification. PMID:23269958

Kang, Chul Hyung; Lee, Kyung Jae; Cho, Chul Hyun; Lee, Si Wook; Shin, Hong Kwan; Lee, Young Kook; Bae, Ji Suk

2012-01-01

430

Ultrastructure and molecular phylogenetic position of a novel euglenozoan with extrusive episymbiotic bacteria: Bihospites bacati n. gen. et sp. (Symbiontida)  

PubMed Central

Background Poorly understood but highly diverse microbial communities exist within anoxic and oxygen-depleted marine sediments. These communities often harbour single-celled eukaryotes that form symbiotic associations with different prokaryotes. During low tides in South-western British Columbia, Canada, vast areas of marine sand become exposed, forming tidal pools. Oxygen-depleted sediments within these pools are distinctively black at only 2-3 cm depth; these layers contain a rich variety of microorganisms, many of which are undescribed. We discovered and characterized a novel (uncultivated) lineage of heterotrophic euglenozoan within these environments using light microscopy, scanning and transmission electron microscopy, serial sectioning and ultrastructural reconstruction, and molecular phylogenetic analyses of small subunit rDNA sequences. Results Bihospites bacati n. gen. et sp. is a biflagellated microbial eukaryote that lives within low-oxygen intertidal sands and dies within a few hours of exposure to atmospheric oxygen. The cells are enveloped by two different prokaryotic episymbionts: (1) rod-shaped bacteria and (2) longitudinal strings of spherical bacteria, capable of ejecting an internal, tightly wound thread. Ultrastructural data showed that B. bacati possesses all of the euglenozoan synapomorphies. Moreover, phylogenetic analyses of SSU rDNA sequences demonstrated that B. bacati groups strongly with the Symbiontida: a newly established subclade within the Euglenozoa that includes Calkinsia aureus and other unidentified organisms living in low-oxygen sediments. B. bacati also possessed novel features, such as a compact C-shaped rod apparatus encircling the nucleus, a cytostomal funnel and a distinctive cell surface organization reminiscent of the pellicle strips in phagotrophic euglenids. Conclusions We characterized the ultrastructure and molecular phylogenetic position of B. bacati n. gen. et sp. Molecular phylogenetic analyses demonstrated that this species belongs to the Euglenozoa and currently branches as the earliest diverging member of the Symbiontida. This is concordant with ultrastructural features of B. bacati that are intermediate between C. aureus and phagotrophic euglenids, indicating that the most recent ancestor of the Symbiontida descended from phagotrophic euglenids. Additionally, the extrusive episymbionts in B. bacati are strikingly similar to so-called "epixenosomes", prokaryotes previously described in a ciliate species and identified as members of the Verrucomicrobia. These parallel symbioses increase the comparative context for understanding the origin(s) of extrusive organelles in eukaryotes and underscores how little we know about the symbiotic communities of marine benthic environments. PMID:20482870

2010-01-01

431

Ultrastructure and molecular phylogenetic position of Neometanema parovale sp. nov. (Neometanema gen. nov.), a Marine phagotrophic euglenid with skidding motility.  

PubMed

Heteronema is a commonly encountered genus of phagotrophic euglenids that contains very different morphotypes, including elongate gliding species and ovoid skidding forms. We report the first ultrastructural and sequence data from a culture of an ovoid skidding heteronemid, KM051. Cells were 8-23.5 ?m long with 22 pellicular strips and a fibrous extracellular layer. The tubular extrusomes had dense centre sections. The feeding apparatus was barely visible by light microscopy, but included two microtubule-supported rods. The flagella had hollow, inflated transition zones, heteromorphic paraxonemal rods, and sheaths of flagellar hairs. The posterior flagellum bore a knob that, unusually, sat >2 ?m distal to the flagellar base. No ultrastructural features were uniquely shared by KM051 and the elongate, gliding species Heteronema scaphurum. Conversely, the pellicular microtubule array resembles that in deep-branching primary osmotrophs (Aphagea). 18S ribosomal DNA (18S rDNA) phylogenies showed that KM051 is related to a recently obtained Heteronema c.f. exaratum sequence. These skidding heteronemids are not closely related to H. scaphurum, and instead are closely related to Dinema, Anisonema and specifically, Aphagea. The skidding species in Heteronema are transferred to Neometanema gen. nov. (along with most species of Metanema Klebs, 1893), with KM051 described as Neometanema parovale sp. nov. PMID:24945929

Lee, Won Je; Simpson, Alastair G B

2014-08-01

432

‘Candidatus Megaira polyxenophila’ gen. nov., sp. nov.: Considerations on Evolutionary History, Host Range and Shift of Early Divergent Rickettsiae  

PubMed Central

“Neglected Rickettsiaceae” (i.e. those harboured by non-hematophagous eukaryotic hosts) display greater phylogenetic variability and more widespread dispersal than pathogenic ones; yet, the knowledge about their actual host range and host shift mechanism is scarce. The present work reports the characterization following the full-cycle rRNA approach (SSU rRNA sequence, specific in situ hybridization, and ultrastructure) of a novel rickettsial bacterium, herewith proposed as 'Candidatus Megaira polyxenophila' gen. nov., sp. nov. We found it in association with four different free-living ciliates (Diophrys oligothrix, Euplotes octocarinatus, Paramecium caudatum, and Spirostomum sp., all belonging to Alveolata, Ciliophora); furthermore it was recently observed as intracellular occurring in Carteria cerasiformis and Pleodorina japonica (Chlorophyceae, Chlorophyta). Phylogenetic analyses demonstrated the belonging of the candidate new genus to the family Rickettsiaceae (Alphaproteobacteria, Rickettsiales) as a sister group of the genus Rickettsia. In situ observations revealed the ability of the candidate new species to colonize either nuclear or cytoplasmic compartments, depending on the host organism. The presence of the same bacterial species within different, evolutionary distant, hosts indicates that 'Candidatus Megaira polyxenophila' recently underwent several distinct host shifts, thus suggesting the existence of horizontal transmission pathways. We consider these findings as indicative of an unexpected spread of rickettsial infections in aquatic communities, possibly by means of trophic interactions, and hence propose a new interpretation of the origin and phylogenetic diversification of rickettsial bacteria. PMID:23977321

Vannini, Claudia; Galati, Stefano; Schweikert, Michael; Görtz, Hans-Dieter; Verni, Franco; Petroni, Giulio

2013-01-01

433

Methylibium petroleiphilum gen. nov., sp. nov., a novel methyl tert-butyl ether-degrading methylotroph of the Betaproteobacteria.  

PubMed

A Gram-negative, rod-shaped, motile, non-pigmented, facultative aerobe that grew optimally at pH 6.5 and 30 degrees C (strain PM1T) was isolated for its ability to completely degrade the gasoline additive methyl tert-butyl ether. Analysis of the 16S rRNA gene sequence indicated that this bacterium was a member of the class Betaproteobacteria in the Sphaerotilus-Leptothrix group. The 16S rRNA gene sequence identity to other genera in this group, Leptothrix, Aquabacterium, Roseateles, Sphaerotilus, Ideonella and Rubrivivax, ranged from 93 to 96 %. The chemotaxonomic data including Q-8 as the major quinone, C16 : 1omega7c and C16 : 0 as the major fatty acids and a DNA G+C content of 69 mol%, support the inclusion of strain PM1T in the class Betaproteobacteria. It differed from other members of the Sphaerotilus-Leptothrix group by being a facultative methylotroph that used methanol as a sole carbon source, and by also being able to grow heterotrophically in defined media containing ethanol, toluene, benzene, ethylbenzene and dihydroxybenzoates as sole carbon sources. On the basis of the morphological, physiological, biochemical and genetic information, a new genus and species, Methylibium petroleiphilum gen. nov., sp. nov., is proposed, with PM1T (=ATCC BAA-1232T=LMG 22953T) as the type strain. PMID:16627642

Nakatsu, Cindy H; Hristova, Krassimira; Hanada, Satoshi; Meng, Xian-Ying; Hanson, Jessica R; Scow, Kate M; Kamagata, Yoichi

2006-05-01

434

[Salinicola socius gen. nov., sp. nov., a moderately halophilic bacterium from a naphthalene-utilizing microbial association].  

PubMed

A chemoorganotrophic, moderately halophilic bacterium (strain SMB35) has been isolated from a naphthalene-utilizing microbial community obtained from salt mines (Perm region of Russia). Strain SMB35 grows in a wide salinity range, 0.5 to 30% (wt/vol) NaCl. Cells are gram-negative rods motile by means of a single polar flagellum. The predominant fatty acids are 16:1omega7, 16:0, 18:1omega7, and 19 cy. The major lipoquinone is an unsaturated ubiquinone with nine isoprene units (Q-9). The DNA G+C content is 63.0 mol%. The 16S rDNA-based phylogenetic analysis has shown that strain SMB35 formed a separate clade in the cluster of the family Halomonadaceae. The 16S rDNA sequence similarity of the isolate to the members of the family is in the range from 90.6% to 95.1%. The phylogenetic and phenotypic differences from Halomonas elongata (the type species of the genus) and from other members of the family suggest that the isolate represents a novel genus and species, for which the name Salinicola socius gen. nov., sp. nov. is proposed. The type strain is SMB35(T) (=VKM B-2397(T)). PMID:17633412

Anan'ina, L N; Plotnikova, E G; Gavrish, E Iu; Demakov, V A; Evtushenko, L I

2007-01-01

435

Thermovorax subterraneus, gen. nov., sp. nov., a thermophilic hydrogen-producing bacterium isolated from geothermally active underground mine.  

PubMed

A thermophilic, rod-shaped, motile, Gram-positive, spore-forming bacterium strain 70B(T) was isolated from a geothermally active underground mine in Japan. The temperature and pH range for growth was 50-81 degrees C (optimum 71 degrees C) and 6.2-9.8 (optimum pH 7-7.5), respectively. Growth occurred in the presence 0-2% NaCl (optimum 1% NaCl). Strain 70B(T) could utilize glucose, fructose, mannose, mannitol, pyruvate, cellobiose and tryptone as substrates. Thiosulfate was used as electron acceptor. Major whole-cell fatty acids were iso-C(15:0), C(16:0) DMA (dimethyl acetal), C(16:0) and anteiso-C(15:0). The G+C mol% of the DNA was 44.2%. Phylogenetic analysis based on the 16S rRNA gene sequence revealed that the closest relatives of strain 70B(T) were Thermosediminibacter oceani DSM 16646(T) (94% similarity) and Thermosediminibacter litoriperuensis DSM 16647 (93% similarity). The phenotypic, chemotaxonomic and phylogenetic properties suggest that strain 70B(T) represents a novel species in a new genus, for which the name Thermovorax subterraneus gen. nov., sp. nov. is proposed. The type strain of Thermovorax subterraneus is 70B(T) (=DSM 21563 = JCM 15541). PMID:19305944

Mäkinen, Annukka E; Kaksonen, Anna H; Puhakka, Jaakko A

2009-05-01

436

Cipactlichthys scutatus, gen. nov., sp. nov. a New Halecomorph (Neopterygii, Holostei) from the Lower Cretaceous Tlayua Formation of Mexico  

PubMed Central

Based on specimens from the Lower Cretaceous Tlayua Formation of Mexico, we describe a new genus and species of Halecomorphi, Cipactlichthysscutatus gen. et sp. nov, which exhibits several diagnostic characters such as the dermal bones and the scales with ganoin and highly ornamented by numerous tubercles and ridges; parietal slightly longer than wide with approximately the same length as the frontal; jaws extending far, below the posterior orbital margin, reaching the posterior third of the postorbital plate; maxilla with a convexly rounded posterior margin; pectoral fin margins slightly convex; first ray of pectoral fin very long, reaching the posterior edge of the pelvic fin; about 37 preural vertebrae and 7 Ural centra; a series of hypertrophied scales just posterior to the cleithrum; arrangement of flank scales with two rows of deep scales; a series of dorsal and ventral scutes forming the dorsal and ventral midline, between the dorsal and anal fins and the caudal fin. A phylogenetic analysis including two outgroups and eleven neopterygians confirmed the monophyly of the Holostei as well as the monophyly of the Halecomorphi, although this last clade is weakly supported. Cipactlichthysscutatus was hypothesised as the sister-group of the (Ionoscopiformes + Amiiformes). PMID:24023885

Brito, Paulo M.; Alvarado-Ortega, Jesus

2013-01-01

437

Lihuaxuella thermophila gen. nov., sp. nov., isolated from a geothermal soil sample in Tengchong, Yunnan, south-west China.  

PubMed

A novel filamentous bacterium, designated YIM 77831(T), was isolated from a geothermal soil sample collected at Rehai National Park, Tengchong, Yunnan province, south-west China. Growth occurred from 28 to 65 °C (optimum 50 °C), pH 6.0-8.0 (optimum pH 7.0). The strain formed branched substrate mycelia, endospores were produced on the substrate mycelium and aerial mycelium was not produced on any of the growth media tested. Phylogenetic analyses based on 16S rRNA gene sequences indicated that strain YIM 77831(T) was affiliated with the family Thermoactinomycetaceae. The stain YIM 77831(T) contained meso-diaminopimelic acid in the cell wall. Whole-cell hydrolysates contained glucose, galactose, mannose, ribose and rhamnose. The polar lipids were phosphatidylmethylethanolamine, diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, an unidentified aminophospholipid and four unknown phospholipids. The only menaquinone was MK-7. Major fatty acids were iso-C(15:0), anteiso-C(15:0) and anteiso-C(17:0). The G+C content was 55.6 mol%. On the basis of the morphological and chemotaxonomic characteristics as well as genotypic data, strain YIM 77831(T) represents a novel genus and species, Lihuaxuella thermophila gen. nov., sp. nov., in the family Thermoactinomycetaceae. The type strain is YIM 77831(T) (CCTCC AA 2011024(T) = JCM 18059(T)). PMID:22760842

Yu, Tian-Tian; Zhang, Bing-Huo; Yao, Ji-Cheng; Tang, Shu-Kun; Zhou, En-Min; Yin, Yi-Rui; Wei, Da-Qiao; Ming, Hong; Li, Wen-Jun

2012-11-01

438

Iapetonudus (N. gen.) and Iapetognathus Landing, unusual Earliest Ordovician multielement conodont taxa and their utility for biostratigraphy  

USGS Publications Warehouse

The Early Ordovician (Tremadocian) multielement conodont genus Iapetognathus is one of the oldest denticulate euconodont genera known. The ramiform-ramiform apparatus structure of Iapetognathus is not similar morphologically to other Late Cambrian to Earliest Ordovician denticulate multielement taxa, such as Eodentatus or Cordyloduts, because the major denticulate process has a lateral rather than a posterior orientation as it is in the other two examples. For this reason the genus is believed to have developed from the coniform-coniform apparatus Iapetonudus ibexensis (N.gen., n.sp.) through the development of the denticulate lateral processes. The two genera have a number of morphologic features in common and appear in stratigraphic succession. Iapetognathus aengensis (Lindstro??m) is redefined as a multielement taxon using topotype material and Ig. preaengensis Landing is placed in synonymy with it. Iapetognathus sprakersi, recently described by Landing in Landing and others (1996), is recognized as a multielement species and the new multielement species, Ig. fluctivagus, Ig. jilinensis and Ig. landingi n. spp. are described herein, based on type specimens from Utah (U.S.A.), Jilin (China) and Colorado (U.S.A.) respectively. Iapetonudus and Iapetognathus are important genera in defining the level of the Cambrian-Ordovician boundary. Iapetonudus is currently recognized only from Utah, Texas and Oklahoma, but Iapetognathus is cosmopolitan in its distribution.

Nicoll, R.S.; Miller, J.F.; Nowlan, G.S.; Repetski, J.E.; Ethington, R.L.

1999-01-01

439

Dracomyxa pallida gen. et sp. nov.: A New Giant Freshwater Foraminifer, with Remarks on the Taxon Reticulomyxidae (emend.).  

PubMed

Reticulomyxids are organotrophic freshwater foraminifers typically placed within the radiation of early monothalamous Foraminifera. Though ubiquitous, reticulomyxids are rarely reported, which may be due both to their concealed life style and to inappropriate isolation techniques. Their taxonomic position is largely based on developmental stages of the life cycle. Here, we describe a new freshwater species, Dracomyxa pallida gen. nov. et sp. nov., isolated from submersed plant material. It has two possible life cycles including small cells, large plasmodia and encysted stages. Both types of development occur simultaneously in cultures derived from a single cell as well as in crude cultures. We amplified